-- dump date 20120504_154904 -- 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 Phospholipid methyltransferase; Region: PEMT; cl00763 296591000032 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 296591000033 active site 296591000034 substrate binding site [chemical binding]; other site 296591000035 catalytic site [active] 296591000036 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591000037 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 296591000038 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 296591000039 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 296591000040 oligomeric interface; other site 296591000041 putative active site [active] 296591000042 homodimer interface [polypeptide binding]; other site 296591000043 Fic family protein [Function unknown]; Region: COG3177 296591000044 Fic/DOC family; Region: Fic; cl00960 296591000045 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591000046 Protein of unknown function (DUF1749); Region: DUF1749; pfam08538 296591000047 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 296591000048 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591000049 Septum formation topological specificity factor MinE; Region: MinE; cl00538 296591000050 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 296591000051 Switch I; other site 296591000052 Switch II; other site 296591000053 septum formation inhibitor; Reviewed; Region: PRK01973 296591000054 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 296591000055 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 296591000056 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 296591000057 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 296591000058 putative active site [active] 296591000059 putative metal binding site [ion binding]; other site 296591000060 Predicted integral membrane protein [Function unknown]; Region: COG0392 296591000061 cardiolipin synthase 2; Provisional; Region: PRK11263 296591000062 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 296591000063 putative active site [active] 296591000064 catalytic site [active] 296591000065 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 296591000066 putative active site [active] 296591000067 catalytic site [active] 296591000068 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 296591000069 putative catalytic site [active] 296591000070 putative metal binding site [ion binding]; other site 296591000071 putative phosphate binding site [ion binding]; other site 296591000072 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 296591000073 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 296591000074 Putative exonuclease, RdgC; Region: RdgC; cl01122 296591000075 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 296591000076 Ribulose bisphosphate carboxylase like proteins from nonphototrophic bacteria; Region: RLP_NonPhot; cd08207 296591000077 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Reviewed; Region: mtnW; PRK09549 296591000078 dimer interface [polypeptide binding]; other site 296591000079 active site 296591000080 catalytic residue [active] 296591000081 metal binding site [ion binding]; metal-binding site 296591000082 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 296591000083 dimer interface [polypeptide binding]; other site 296591000084 substrate binding site [chemical binding]; other site 296591000085 metal binding site [ion binding]; metal-binding site 296591000086 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 296591000087 DctM-like transporters; Region: DctM; pfam06808 296591000088 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 296591000089 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591000090 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591000091 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 296591000092 DNA binding site [nucleotide binding] 296591000093 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 296591000094 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 296591000095 putative ligand binding site [chemical binding]; other site 296591000096 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 296591000097 ThiC-associated domain; Region: ThiC-associated; pfam13667 296591000098 ThiC family; Region: ThiC; cl08031 296591000099 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591000100 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 296591000101 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 296591000102 ThiS interaction site; other site 296591000103 putative active site [active] 296591000104 tetramer interface [polypeptide binding]; other site 296591000105 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 296591000106 thiamine phosphate binding site [chemical binding]; other site 296591000107 active site 296591000108 pyrophosphate binding site [ion binding]; other site 296591000109 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 296591000110 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 296591000111 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 296591000112 metal binding site [ion binding]; metal-binding site 296591000113 putative dimer interface [polypeptide binding]; other site 296591000114 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 296591000115 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 296591000116 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 296591000117 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 296591000118 Cupin domain; Region: Cupin_2; cl09118 296591000119 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591000120 FAD dependent oxidoreductase; Region: DAO; pfam01266 296591000121 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 296591000122 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591000123 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 296591000124 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 296591000125 Helix-turn-helix domains; Region: HTH; cl00088 296591000126 hypothetical protein; Provisional; Region: PRK05965 296591000127 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 296591000128 inhibitor-cofactor binding pocket; inhibition site 296591000129 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591000130 catalytic residue [active] 296591000131 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 296591000132 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591000133 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 296591000134 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591000135 Coenzyme A binding pocket [chemical binding]; other site 296591000136 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591000137 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 296591000138 NAD(P) binding site [chemical binding]; other site 296591000139 catalytic residues [active] 296591000140 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 296591000141 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 296591000142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591000143 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 296591000144 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 296591000145 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 296591000146 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 296591000147 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 296591000148 dimer interface [polypeptide binding]; other site 296591000149 conserved gate region; other site 296591000150 putative PBP binding loops; other site 296591000151 ABC-ATPase subunit interface; other site 296591000152 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 296591000153 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 296591000154 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 296591000155 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 296591000156 Walker A/P-loop; other site 296591000157 ATP binding site [chemical binding]; other site 296591000158 Q-loop/lid; other site 296591000159 ABC transporter signature motif; other site 296591000160 Walker B; other site 296591000161 D-loop; other site 296591000162 H-loop/switch region; other site 296591000163 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591000164 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 296591000165 Walker A/P-loop; other site 296591000166 ATP binding site [chemical binding]; other site 296591000167 Q-loop/lid; other site 296591000168 ABC transporter signature motif; other site 296591000169 Walker B; other site 296591000170 D-loop; other site 296591000171 H-loop/switch region; other site 296591000172 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591000173 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591000174 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 296591000175 tetramerization interface [polypeptide binding]; other site 296591000176 NAD(P) binding site [chemical binding]; other site 296591000177 catalytic residues [active] 296591000178 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 296591000179 FMN binding site [chemical binding]; other site 296591000180 active site 296591000181 substrate binding site [chemical binding]; other site 296591000182 catalytic residue [active] 296591000183 AsmA family; Region: AsmA; pfam05170 296591000184 AsmA-like C-terminal region; Region: AsmA_2; cl15864 296591000185 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 296591000186 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 296591000187 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 296591000188 intersubunit interface [polypeptide binding]; other site 296591000189 active site 296591000190 Zn2+ binding site [ion binding]; other site 296591000191 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591000192 Helix-turn-helix domains; Region: HTH; cl00088 296591000193 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 296591000194 dimerization interface [polypeptide binding]; other site 296591000195 Flagellin N-methylase; Region: FliB; cl00497 296591000196 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 296591000197 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 296591000198 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591000199 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591000200 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 296591000201 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; cl15754 296591000202 LysE type translocator; Region: LysE; cl00565 296591000203 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 296591000204 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 296591000205 P-loop; other site 296591000206 Magnesium ion binding site [ion binding]; other site 296591000207 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 296591000208 Magnesium ion binding site [ion binding]; other site 296591000209 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591000210 ParB-like nuclease domain; Region: ParBc; cl02129 296591000211 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 296591000212 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 296591000213 putative C-terminal domain interface [polypeptide binding]; other site 296591000214 putative GSH binding site (G-site) [chemical binding]; other site 296591000215 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 296591000216 putative dimer interface [polypeptide binding]; other site 296591000217 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 296591000218 dimer interface [polypeptide binding]; other site 296591000219 N-terminal domain interface [polypeptide binding]; other site 296591000220 putative substrate binding pocket (H-site) [chemical binding]; other site 296591000221 Indigoidine synthase A like protein; Region: Indigoidine_A; cl00983 296591000222 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 296591000223 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 296591000224 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 296591000225 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 296591000226 PhnA protein; Region: PhnA; pfam03831 296591000227 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591000228 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 296591000229 tetramerization interface [polypeptide binding]; other site 296591000230 NAD(P) binding site [chemical binding]; other site 296591000231 catalytic residues [active] 296591000232 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591000233 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591000234 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591000235 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 296591000236 DctM-like transporters; Region: DctM; pfam06808 296591000237 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 296591000238 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591000239 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 296591000240 NAD(P) binding site [chemical binding]; other site 296591000241 catalytic residues [active] 296591000242 catalytic residues [active] 296591000243 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 296591000244 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591000245 NAD(P) binding site [chemical binding]; other site 296591000246 active site 296591000247 Ribulose bisphosphate carboxylase like proteins from nonphototrophic bacteria; Region: RLP_NonPhot; cd08207 296591000248 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 296591000249 dimer interface [polypeptide binding]; other site 296591000250 active site 296591000251 catalytic residue [active] 296591000252 metal binding site [ion binding]; metal-binding site 296591000253 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 296591000254 transcriptional regulator NanR; Provisional; Region: PRK03837 296591000255 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591000256 DNA-binding site [nucleotide binding]; DNA binding site 296591000257 FCD domain; Region: FCD; cl11656 296591000258 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591000259 classical (c) SDRs; Region: SDR_c; cd05233 296591000260 NAD(P) binding site [chemical binding]; other site 296591000261 active site 296591000262 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 296591000263 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 296591000264 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 296591000265 PhnA protein; Region: PhnA; pfam03831 296591000266 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 296591000267 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 296591000268 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591000269 NAD(P) binding site [chemical binding]; other site 296591000270 active site 296591000271 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 296591000272 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 296591000273 putative NAD(P) binding site [chemical binding]; other site 296591000274 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 296591000275 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 296591000276 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 296591000277 NADP binding site [chemical binding]; other site 296591000278 dimer interface [polypeptide binding]; other site 296591000279 short chain dehydrogenase; Provisional; Region: PRK06179 296591000280 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 296591000281 NADP binding site [chemical binding]; other site 296591000282 active site 296591000283 steroid binding site; other site 296591000284 Helix-turn-helix domains; Region: HTH; cl00088 296591000285 YXWGXW repeat (2 copies); Region: YXWGXW; pfam12779 296591000286 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 296591000287 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 296591000288 FAD binding domain; Region: FAD_binding_4; pfam01565 296591000289 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; cl08302 296591000290 Secreted protein acidic and rich in cysteine Ca binding region; Region: SPARC_Ca_bdg; pfam10591 296591000291 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 296591000292 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 296591000293 CoenzymeA binding site [chemical binding]; other site 296591000294 subunit interaction site [polypeptide binding]; other site 296591000295 PHB binding site; other site 296591000296 AsmA-like C-terminal region; Region: AsmA_2; cl15864 296591000297 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 296591000298 uracil-xanthine permease; Region: ncs2; TIGR00801 296591000299 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591000300 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591000301 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 296591000302 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 296591000303 AMP-binding enzyme; Region: AMP-binding; cl15778 296591000304 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 296591000305 EamA-like transporter family; Region: EamA; cl01037 296591000306 cell density-dependent motility repressor; Provisional; Region: PRK10082 296591000307 Helix-turn-helix domains; Region: HTH; cl00088 296591000308 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 296591000309 dimerization interface [polypeptide binding]; other site 296591000310 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591000311 NMT1-like family; Region: NMT1_2; cl15260 296591000312 Predicted deacylase [General function prediction only]; Region: COG3608 296591000313 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 296591000314 putative active site [active] 296591000315 Zn binding site [ion binding]; other site 296591000316 Flavin Reductases; Region: FlaRed; cl00801 296591000317 Activator of aromatic catabolism; Region: XylR_N; pfam06505 296591000318 Heme NO binding; Region: HNOB; cl15268 296591000319 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 296591000320 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 296591000321 Walker A motif; other site 296591000322 ATP binding site [chemical binding]; other site 296591000323 Walker B motif; other site 296591000324 arginine finger; other site 296591000325 Helix-turn-helix domains; Region: HTH; cl00088 296591000326 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591000327 NAD-dependent benzaldehyde dehydrogenase II-like; Region: ALDH_BenzADH; cd07152 296591000328 NAD(P) binding site [chemical binding]; other site 296591000329 catalytic residues [active] 296591000330 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591000331 NAD(P) binding site [chemical binding]; other site 296591000332 3-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK12428 296591000333 active site 296591000334 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 296591000335 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 296591000336 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 296591000337 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 296591000338 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591000339 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 296591000340 substrate binding pocket [chemical binding]; other site 296591000341 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 296591000342 SxDxEG motif; other site 296591000343 active site 296591000344 metal binding site [ion binding]; metal-binding site 296591000345 homopentamer interface [polypeptide binding]; other site 296591000346 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 296591000347 homodimer interface [polypeptide binding]; other site 296591000348 homotetramer interface [polypeptide binding]; other site 296591000349 active site pocket [active] 296591000350 cleavage site 296591000351 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 296591000352 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 296591000353 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 296591000354 dimer interface [polypeptide binding]; other site 296591000355 conserved gate region; other site 296591000356 putative PBP binding loops; other site 296591000357 ABC-ATPase subunit interface; other site 296591000358 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 296591000359 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 296591000360 dimer interface [polypeptide binding]; other site 296591000361 conserved gate region; other site 296591000362 putative PBP binding loops; other site 296591000363 ABC-ATPase subunit interface; other site 296591000364 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 296591000365 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 296591000366 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 296591000367 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 296591000368 Walker A/P-loop; other site 296591000369 ATP binding site [chemical binding]; other site 296591000370 Q-loop/lid; other site 296591000371 ABC transporter signature motif; other site 296591000372 Walker B; other site 296591000373 D-loop; other site 296591000374 H-loop/switch region; other site 296591000375 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591000376 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 296591000377 Walker A/P-loop; other site 296591000378 ATP binding site [chemical binding]; other site 296591000379 Q-loop/lid; other site 296591000380 ABC transporter signature motif; other site 296591000381 Walker B; other site 296591000382 D-loop; other site 296591000383 H-loop/switch region; other site 296591000384 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591000385 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 296591000386 active site 296591000387 dimer interface [polypeptide binding]; other site 296591000388 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 296591000389 catalytic nucleophile [active] 296591000390 catalytic nucleophile [active] 296591000391 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 296591000392 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 296591000393 putative active site [active] 296591000394 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 296591000395 dimer interface [polypeptide binding]; other site 296591000396 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591000397 metal binding site [ion binding]; metal-binding site 296591000398 LysE type translocator; Region: LysE; cl00565 296591000399 Predicted transcriptional regulator [Transcription]; Region: COG2378 296591000400 Helix-turn-helix domains; Region: HTH; cl00088 296591000401 WYL domain; Region: WYL; cl14852 296591000402 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 296591000403 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591000404 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 296591000405 Helix-turn-helix domains; Region: HTH; cl00088 296591000406 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 296591000407 dimerization interface [polypeptide binding]; other site 296591000408 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 296591000409 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 296591000410 putative ligand binding site [chemical binding]; other site 296591000411 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 296591000412 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 296591000413 dimerization interface [polypeptide binding]; other site 296591000414 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 296591000415 putative active site [active] 296591000416 heme pocket [chemical binding]; other site 296591000417 GAF domain; Region: GAF; cl15785 296591000418 GAF domain; Region: GAF_2; pfam13185 296591000419 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 296591000420 PAS fold; Region: PAS_3; pfam08447 296591000421 putative active site [active] 296591000422 heme pocket [chemical binding]; other site 296591000423 GAF domain; Region: GAF_2; pfam13185 296591000424 GAF domain; Region: GAF; cl15785 296591000425 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 296591000426 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 296591000427 putative active site [active] 296591000428 heme pocket [chemical binding]; other site 296591000429 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 296591000430 dimer interface [polypeptide binding]; other site 296591000431 phosphorylation site [posttranslational modification] 296591000432 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 296591000433 ATP binding site [chemical binding]; other site 296591000434 Mg2+ binding site [ion binding]; other site 296591000435 G-X-G motif; other site 296591000436 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591000437 Helix-turn-helix domains; Region: HTH; cl00088 296591000438 CHASE domain; Region: CHASE; cl01369 296591000439 PAS fold; Region: PAS_3; pfam08447 296591000440 PAS domain S-box; Region: sensory_box; TIGR00229 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 putative active site [active] 296591000443 heme pocket [chemical binding]; other site 296591000444 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 296591000445 dimer interface [polypeptide binding]; other site 296591000446 phosphorylation site [posttranslational modification] 296591000447 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 296591000448 ATP binding site [chemical binding]; other site 296591000449 Mg2+ binding site [ion binding]; other site 296591000450 G-X-G motif; other site 296591000451 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 296591000452 active site 296591000453 metal binding site [ion binding]; metal-binding site 296591000454 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591000455 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 296591000456 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591000457 NMT1-like family; Region: NMT1_2; cl15260 296591000458 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 296591000459 Helix-turn-helix domains; Region: HTH; cl00088 296591000460 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 296591000461 substrate binding pocket [chemical binding]; other site 296591000462 dimerization interface [polypeptide binding]; other site 296591000463 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 296591000464 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 296591000465 active site 296591000466 substrate-binding site [chemical binding]; other site 296591000467 metal-binding site [ion binding] 296591000468 GTP binding site [chemical binding]; other site 296591000469 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 296591000470 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 296591000471 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 296591000472 dimer interface [polypeptide binding]; other site 296591000473 conserved gate region; other site 296591000474 putative PBP binding loops; other site 296591000475 ABC-ATPase subunit interface; other site 296591000476 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591000477 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 296591000478 Walker A/P-loop; other site 296591000479 ATP binding site [chemical binding]; other site 296591000480 Q-loop/lid; other site 296591000481 ABC transporter signature motif; other site 296591000482 Walker B; other site 296591000483 D-loop; other site 296591000484 H-loop/switch region; other site 296591000485 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 296591000486 threonine dehydratase; Provisional; Region: PRK07334 296591000487 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 296591000488 tetramer interface [polypeptide binding]; other site 296591000489 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591000490 catalytic residue [active] 296591000491 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 296591000492 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 296591000493 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 296591000494 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 296591000495 Walker A motif; other site 296591000496 ATP binding site [chemical binding]; other site 296591000497 Walker B motif; other site 296591000498 arginine finger; other site 296591000499 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 296591000500 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 296591000501 Walker A motif; other site 296591000502 ATP binding site [chemical binding]; other site 296591000503 Walker B motif; other site 296591000504 arginine finger; other site 296591000505 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591000506 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591000507 NAD(P) binding site [chemical binding]; other site 296591000508 active site 296591000509 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 296591000510 cofactor binding site; other site 296591000511 metal binding site [ion binding]; metal-binding site 296591000512 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 296591000513 aromatic arch; other site 296591000514 DCoH dimer interaction site [polypeptide binding]; other site 296591000515 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 296591000516 DCoH tetramer interaction site [polypeptide binding]; other site 296591000517 substrate binding site [chemical binding]; other site 296591000518 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 296591000519 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 296591000520 ATP binding site [chemical binding]; other site 296591000521 putative Mg++ binding site [ion binding]; other site 296591000522 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 296591000523 nucleotide binding region [chemical binding]; other site 296591000524 ATP-binding site [chemical binding]; other site 296591000525 RQC domain; Region: RQC; cl09632 296591000526 HRDC domain; Region: HRDC; cl02578 296591000527 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 296591000528 active site residue [active] 296591000529 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 296591000530 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 296591000531 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 296591000532 ligand binding site [chemical binding]; other site 296591000533 flexible hinge region; other site 296591000534 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 296591000535 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 296591000536 substrate binding pocket [chemical binding]; other site 296591000537 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 296591000538 B12 binding site [chemical binding]; other site 296591000539 cobalt ligand [ion binding]; other site 296591000540 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 296591000541 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 296591000542 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591000543 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 296591000544 ligand binding site [chemical binding]; other site 296591000545 flexible hinge region; other site 296591000546 Helix-turn-helix domains; Region: HTH; cl00088 296591000547 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591000548 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 296591000549 ligand binding site [chemical binding]; other site 296591000550 flexible hinge region; other site 296591000551 Helix-turn-helix domains; Region: HTH; cl00088 296591000552 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 296591000553 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 296591000554 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591000555 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 296591000556 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 296591000557 Nitrogen regulatory protein P-II; Region: P-II; cl00412 296591000558 Nitrogen regulatory protein P-II; Region: P-II; smart00938 296591000559 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 296591000560 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 296591000561 Transglycosylase; Region: Transgly; cl07896 296591000562 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 296591000563 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 296591000564 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 296591000565 FAD binding domain; Region: FAD_binding_4; pfam01565 296591000566 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 296591000567 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 296591000568 Cysteine-rich domain; Region: CCG; pfam02754 296591000569 Cysteine-rich domain; Region: CCG; pfam02754 296591000570 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 296591000571 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 296591000572 catalytic residues [active] 296591000573 dimer interface [polypeptide binding]; other site 296591000574 lysophospholipid transporter LplT; Provisional; Region: PRK11195 296591000575 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 296591000576 alanine racemase; Reviewed; Region: dadX; PRK03646 296591000577 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 296591000578 active site 296591000579 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 296591000580 substrate binding site [chemical binding]; other site 296591000581 catalytic residues [active] 296591000582 dimer interface [polypeptide binding]; other site 296591000583 putative acetyltransferase; Provisional; Region: PRK03624 296591000584 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591000585 Coenzyme A binding pocket [chemical binding]; other site 296591000586 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 296591000587 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591000588 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 296591000589 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591000590 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 296591000591 NMT1-like family; Region: NMT1_2; cl15260 296591000592 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 296591000593 putative substrate binding pocket [chemical binding]; other site 296591000594 trimer interface [polypeptide binding]; other site 296591000595 DNA repair protein RadA; Provisional; Region: PRK11823 296591000596 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 296591000597 Walker A motif/ATP binding site; other site 296591000598 ATP binding site [chemical binding]; other site 296591000599 Walker B motif; other site 296591000600 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 296591000601 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 296591000602 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 296591000603 active site 296591000604 metal binding site [ion binding]; metal-binding site 296591000605 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 296591000606 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 296591000607 homodimer interface [polypeptide binding]; other site 296591000608 substrate-cofactor binding pocket; other site 296591000609 catalytic residue [active] 296591000610 Zinc-finger domain; Region: zf-CHCC; cl01821 296591000611 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 296591000612 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 296591000613 putative active site [active] 296591000614 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 296591000615 FMN binding site [chemical binding]; other site 296591000616 substrate binding site [chemical binding]; other site 296591000617 putative catalytic residue [active] 296591000618 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 296591000619 dimerization interface [polypeptide binding]; other site 296591000620 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 296591000621 dimer interface [polypeptide binding]; other site 296591000622 phosphorylation site [posttranslational modification] 296591000623 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 296591000624 ATP binding site [chemical binding]; other site 296591000625 G-X-G motif; other site 296591000626 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 296591000627 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 296591000628 active site 296591000629 phosphorylation site [posttranslational modification] 296591000630 intermolecular recognition site; other site 296591000631 dimerization interface [polypeptide binding]; other site 296591000632 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 296591000633 DNA binding site [nucleotide binding] 296591000634 AmpG-related permease; Region: 2A0125; TIGR00901 296591000635 muropeptide transporter; Validated; Region: ampG; PRK11010 296591000636 Peptidase family M48; Region: Peptidase_M48; cl12018 296591000637 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 296591000638 HPP family; Region: HPP; pfam04982 296591000639 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 296591000640 CHASE3 domain; Region: CHASE3; cl05000 296591000641 PAS domain S-box; Region: sensory_box; TIGR00229 296591000642 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 296591000643 putative active site [active] 296591000644 heme pocket [chemical binding]; other site 296591000645 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 296591000646 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 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 Mg2+ binding site [ion binding]; other site 296591000653 G-X-G motif; other site 296591000654 Response regulator receiver domain; Region: Response_reg; pfam00072 296591000655 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 296591000656 active site 296591000657 phosphorylation site [posttranslational modification] 296591000658 intermolecular recognition site; other site 296591000659 dimerization interface [polypeptide binding]; other site 296591000660 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 296591000661 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 296591000662 active site 296591000663 phosphorylation site [posttranslational modification] 296591000664 intermolecular recognition site; other site 296591000665 dimerization interface [polypeptide binding]; other site 296591000666 Response regulator receiver domain; Region: Response_reg; pfam00072 296591000667 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 296591000668 active site 296591000669 phosphorylation site [posttranslational modification] 296591000670 intermolecular recognition site; other site 296591000671 dimerization interface [polypeptide binding]; other site 296591000672 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 296591000673 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591000674 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 296591000675 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 296591000676 Cation transport protein; Region: TrkH; cl10514 296591000677 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 296591000678 putative catalytic site [active] 296591000679 putative metal binding site [ion binding]; other site 296591000680 putative phosphate binding site [ion binding]; other site 296591000681 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 296591000682 putative metal binding site [ion binding]; other site 296591000683 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 296591000684 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 296591000685 active site 296591000686 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 296591000687 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 296591000688 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 296591000689 GatB domain; Region: GatB_Yqey; cl11497 296591000690 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 296591000691 Amidase; Region: Amidase; cl11426 296591000692 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 296591000693 rod shape-determining protein MreB; Provisional; Region: PRK13927 296591000694 hypothetical protein; Provisional; Region: PRK10039 296591000695 Cell division protein FtsA; Region: FtsA; cl11496 296591000696 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 296591000697 rod shape-determining protein MreC; Region: MreC; pfam04085 296591000698 rod shape-determining protein MreD; Region: MreD; cl01087 296591000699 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 296591000700 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 296591000701 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 296591000702 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 296591000703 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 296591000704 Response regulator receiver domain; Region: Response_reg; pfam00072 296591000705 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 296591000706 active site 296591000707 phosphorylation site [posttranslational modification] 296591000708 intermolecular recognition site; other site 296591000709 dimerization interface [polypeptide binding]; other site 296591000710 PAS domain S-box; Region: sensory_box; TIGR00229 296591000711 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 296591000712 putative active site [active] 296591000713 heme pocket [chemical binding]; other site 296591000714 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 296591000715 dimer interface [polypeptide binding]; other site 296591000716 phosphorylation site [posttranslational modification] 296591000717 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 296591000718 ATP binding site [chemical binding]; other site 296591000719 Mg2+ binding site [ion binding]; other site 296591000720 G-X-G motif; other site 296591000721 choline dehydrogenase; Validated; Region: PRK02106 296591000722 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591000723 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 296591000724 Permease; Region: Permease; cl00510 296591000725 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 296591000726 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 296591000727 Walker A/P-loop; other site 296591000728 ATP binding site [chemical binding]; other site 296591000729 Q-loop/lid; other site 296591000730 ABC transporter signature motif; other site 296591000731 Walker B; other site 296591000732 D-loop; other site 296591000733 H-loop/switch region; other site 296591000734 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 296591000735 mce related protein; Region: MCE; pfam02470 296591000736 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 296591000737 ligand binding site [chemical binding]; other site 296591000738 flexible hinge region; other site 296591000739 Inner membrane protein CreD; Region: CreD; cl01844 296591000740 sensory histidine kinase CreC; Provisional; Region: PRK11100 296591000741 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 296591000742 dimer interface [polypeptide binding]; other site 296591000743 phosphorylation site [posttranslational modification] 296591000744 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 296591000745 ATP binding site [chemical binding]; other site 296591000746 G-X-G motif; other site 296591000747 DNA-binding response regulator CreB; Provisional; Region: PRK11083 296591000748 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 296591000749 active site 296591000750 phosphorylation site [posttranslational modification] 296591000751 intermolecular recognition site; other site 296591000752 dimerization interface [polypeptide binding]; other site 296591000753 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 296591000754 DNA binding site [nucleotide binding] 296591000755 MarC family integral membrane protein; Region: MarC; cl00919 296591000756 short chain dehydrogenase; Provisional; Region: PRK06123 296591000757 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591000758 NAD(P) binding site [chemical binding]; other site 296591000759 active site 296591000760 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 296591000761 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 296591000762 putative catalytic residue [active] 296591000763 Dienelactone hydrolase family; Region: DLH; pfam01738 296591000764 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591000765 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 296591000766 glutathionine S-transferase; Provisional; Region: PRK10542 296591000767 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 296591000768 C-terminal domain interface [polypeptide binding]; other site 296591000769 GSH binding site (G-site) [chemical binding]; other site 296591000770 dimer interface [polypeptide binding]; other site 296591000771 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 296591000772 N-terminal domain interface [polypeptide binding]; other site 296591000773 dimer interface [polypeptide binding]; other site 296591000774 substrate binding pocket (H-site) [chemical binding]; other site 296591000775 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 296591000776 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 296591000777 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 296591000778 dimer interface [polypeptide binding]; other site 296591000779 active site 296591000780 aspartate-rich active site metal binding site; other site 296591000781 allosteric magnesium binding site [ion binding]; other site 296591000782 Schiff base residues; other site 296591000783 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 296591000784 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 296591000785 dimer interface [polypeptide binding]; other site 296591000786 [2Fe-2S] cluster binding site [ion binding]; other site 296591000787 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 296591000788 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 296591000789 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 296591000790 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 296591000791 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 296591000792 S17 interaction site [polypeptide binding]; other site 296591000793 S8 interaction site; other site 296591000794 16S rRNA interaction site [nucleotide binding]; other site 296591000795 streptomycin interaction site [chemical binding]; other site 296591000796 23S rRNA interaction site [nucleotide binding]; other site 296591000797 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 296591000798 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 296591000799 elongation factor G; Reviewed; Region: PRK00007 296591000800 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 296591000801 G1 box; other site 296591000802 putative GEF interaction site [polypeptide binding]; other site 296591000803 GTP/Mg2+ binding site [chemical binding]; other site 296591000804 Switch I region; other site 296591000805 G2 box; other site 296591000806 G3 box; other site 296591000807 Switch II region; other site 296591000808 G4 box; other site 296591000809 G5 box; other site 296591000810 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 296591000811 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 296591000812 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 296591000813 elongation factor Tu; Reviewed; Region: PRK00049 296591000814 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 296591000815 G1 box; other site 296591000816 GEF interaction site [polypeptide binding]; other site 296591000817 GTP/Mg2+ binding site [chemical binding]; other site 296591000818 Switch I region; other site 296591000819 G2 box; other site 296591000820 G3 box; other site 296591000821 Switch II region; other site 296591000822 G4 box; other site 296591000823 G5 box; other site 296591000824 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 296591000825 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 296591000826 Antibiotic Binding Site [chemical binding]; other site 296591000827 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 296591000828 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 296591000829 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 296591000830 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 296591000831 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 296591000832 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 296591000833 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 296591000834 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 296591000835 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 296591000836 putative translocon binding site; other site 296591000837 protein-rRNA interface [nucleotide binding]; other site 296591000838 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 296591000839 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 296591000840 G-X-X-G motif; other site 296591000841 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 296591000842 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 296591000843 23S rRNA interface [nucleotide binding]; other site 296591000844 5S rRNA interface [nucleotide binding]; other site 296591000845 putative antibiotic binding site [chemical binding]; other site 296591000846 L25 interface [polypeptide binding]; other site 296591000847 L27 interface [polypeptide binding]; other site 296591000848 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; cl09943 296591000849 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 296591000850 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 296591000851 catalytic triad [active] 296591000852 dimer interface [polypeptide binding]; other site 296591000853 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591000854 Coenzyme A binding pocket [chemical binding]; other site 296591000855 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 296591000856 Cytochrome C'; Region: Cytochrom_C_2; cl01610 296591000857 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 296591000858 catalytic residues [active] 296591000859 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 296591000860 Cupin domain; Region: Cupin_2; cl09118 296591000861 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 296591000862 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 296591000863 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 296591000864 tetramer interface [polypeptide binding]; other site 296591000865 TPP-binding site [chemical binding]; other site 296591000866 heterodimer interface [polypeptide binding]; other site 296591000867 phosphorylation loop region [posttranslational modification] 296591000868 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 296591000869 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 296591000870 alpha subunit interface [polypeptide binding]; other site 296591000871 TPP binding site [chemical binding]; other site 296591000872 heterodimer interface [polypeptide binding]; other site 296591000873 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 296591000874 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 296591000875 2-oxoisovalerate dehydrogenase E2 component; Region: PLN02528 296591000876 E3 interaction surface; other site 296591000877 lipoyl attachment site [posttranslational modification]; other site 296591000878 e3 binding domain; Region: E3_binding; pfam02817 296591000879 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 296591000880 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 296591000881 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 296591000882 catalytic residues [active] 296591000883 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591000884 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591000885 formyl-coenzyme A transferase; Provisional; Region: PRK05398 296591000886 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 296591000887 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591000888 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591000889 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591000890 Helix-turn-helix domains; Region: HTH; cl00088 296591000891 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 296591000892 dimerization interface [polypeptide binding]; other site 296591000893 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 296591000894 intersubunit interface [polypeptide binding]; other site 296591000895 active site 296591000896 Zn2+ binding site [ion binding]; other site 296591000897 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591000898 NMT1-like family; Region: NMT1_2; cl15260 296591000899 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 296591000900 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 296591000901 substrate binding pocket [chemical binding]; other site 296591000902 membrane-bound complex binding site; other site 296591000903 hinge residues; other site 296591000904 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 296591000905 Helix-turn-helix domains; Region: HTH; cl00088 296591000906 Protein of unknown function (DUF419); Region: DUF419; cl15265 296591000907 cyanate hydratase; Validated; Region: PRK02866 296591000908 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 296591000909 oligomer interface [polypeptide binding]; other site 296591000910 active site 296591000911 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 296591000912 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 296591000913 Walker A/P-loop; other site 296591000914 ATP binding site [chemical binding]; other site 296591000915 Q-loop/lid; other site 296591000916 ABC transporter signature motif; other site 296591000917 Walker B; other site 296591000918 D-loop; other site 296591000919 H-loop/switch region; other site 296591000920 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 296591000921 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 296591000922 dimer interface [polypeptide binding]; other site 296591000923 conserved gate region; other site 296591000924 putative PBP binding loops; other site 296591000925 ABC-ATPase subunit interface; other site 296591000926 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 296591000927 NMT1-like family; Region: NMT1_2; cl15260 296591000928 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 296591000929 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 296591000930 active site 296591000931 phosphorylation site [posttranslational modification] 296591000932 intermolecular recognition site; other site 296591000933 dimerization interface [polypeptide binding]; other site 296591000934 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 296591000935 DNA binding residues [nucleotide binding] 296591000936 dimerization interface [polypeptide binding]; other site 296591000937 PAS domain S-box; Region: sensory_box; TIGR00229 296591000938 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 296591000939 putative active site [active] 296591000940 heme pocket [chemical binding]; other site 296591000941 two component system sensor kinase SsrA; Provisional; Region: PRK15347 296591000942 Histidine kinase; Region: HisKA_3; pfam07730 296591000943 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 296591000944 ATP binding site [chemical binding]; other site 296591000945 Mg2+ binding site [ion binding]; other site 296591000946 G-X-G motif; other site 296591000947 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 296591000948 putative substrate translocation pore; other site 296591000949 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 296591000950 active pocket/dimerization site; other site 296591000951 active site 296591000952 phosphorylation site [posttranslational modification] 296591000953 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 296591000954 regulatory protein interface [polypeptide binding]; other site 296591000955 active site 296591000956 regulatory phosphorylation site [posttranslational modification]; other site 296591000957 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 296591000958 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 296591000959 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 296591000960 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 296591000961 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 bacteriocins; Region: Peptidase_C39_likeD; cd02421 296591000962 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 296591000963 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 296591000964 ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two...; Region: ABCC_bacteriocin_exporters; cd03245 296591000965 Walker A/P-loop; other site 296591000966 ATP binding site [chemical binding]; other site 296591000967 Q-loop/lid; other site 296591000968 ABC transporter signature motif; other site 296591000969 Walker B; other site 296591000970 D-loop; other site 296591000971 H-loop/switch region; other site 296591000972 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 296591000973 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 296591000974 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 296591000975 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 296591000976 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 296591000977 DNA binding residues [nucleotide binding] 296591000978 dimerization interface [polypeptide binding]; other site 296591000979 Calx-beta domain; Region: Calx-beta; cl02522 296591000980 VCBS repeat; Region: VCBS_repeat; TIGR01965 296591000981 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 296591000982 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 296591000983 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 296591000984 type 1 secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 296591000985 Calx-beta domain; Region: Calx-beta; cl02522 296591000986 VCBS repeat; Region: VCBS_repeat; TIGR01965 296591000987 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 296591000988 type 1 secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 296591000989 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 296591000990 N-acetyl-D-glucosamine binding site [chemical binding]; other site 296591000991 catalytic residue [active] 296591000992 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 296591000993 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 296591000994 metal binding site [ion binding]; metal-binding site 296591000995 active site 296591000996 I-site; other site 296591000997 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 296591000998 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 296591000999 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 296591001000 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 296591001001 ligand binding site [chemical binding]; other site 296591001002 EamA-like transporter family; Region: EamA; cl01037 296591001003 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 296591001004 lipoyl synthase; Provisional; Region: PRK05481 296591001005 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 296591001006 FeS/SAM binding site; other site 296591001007 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 296591001008 Fic family protein [Function unknown]; Region: COG3177 296591001009 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 296591001010 Fic/DOC family; Region: Fic; cl00960 296591001011 Helix-turn-helix domains; Region: HTH; cl00088 296591001012 Protein of unknown function (DUF493); Region: DUF493; cl01102 296591001013 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 296591001014 homodimer interface [polypeptide binding]; other site 296591001015 substrate-cofactor binding pocket; other site 296591001016 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591001017 catalytic residue [active] 296591001018 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 296591001019 ATP synthase I chain; Region: ATP_synt_I; cl09170 296591001020 ATP synthase A chain; Region: ATP-synt_A; cl00413 296591001021 ATP synthase subunit C; Region: ATP-synt_C; cl00466 296591001022 Plant ATP synthase F0; Region: YMF19; cl07975 296591001023 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 296591001024 Plant ATP synthase F0; Region: YMF19; cl07975 296591001025 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 296591001026 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 296591001027 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 296591001028 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 296591001029 beta subunit interaction interface [polypeptide binding]; other site 296591001030 Walker A motif; other site 296591001031 ATP binding site [chemical binding]; other site 296591001032 Walker B motif; other site 296591001033 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 296591001034 ATP synthase; Region: ATP-synt; cl00365 296591001035 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 296591001036 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 296591001037 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 296591001038 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 296591001039 alpha subunit interaction interface [polypeptide binding]; other site 296591001040 Walker A motif; other site 296591001041 ATP binding site [chemical binding]; other site 296591001042 Walker B motif; other site 296591001043 inhibitor binding site; inhibition site 296591001044 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 296591001045 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 296591001046 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 296591001047 Repair protein; Region: Repair_PSII; cl01535 296591001048 Repair protein; Region: Repair_PSII; cl01535 296591001049 LemA family; Region: LemA; cl00742 296591001050 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 296591001051 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 296591001052 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 296591001053 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 296591001054 Cytochrome c; Region: Cytochrom_C; cl11414 296591001055 HipA N-terminal domain; Region: Couple_hipA; cl11853 296591001056 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 296591001057 HipA-like N-terminal domain; Region: HipA_N; pfam07805 296591001058 HipA-like C-terminal domain; Region: HipA_C; pfam07804 296591001059 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 296591001060 non-specific DNA binding site [nucleotide binding]; other site 296591001061 salt bridge; other site 296591001062 sequence-specific DNA binding site [nucleotide binding]; other site 296591001063 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 296591001064 Helix-turn-helix domains; Region: HTH; cl00088 296591001065 putative transposase OrfB; Reviewed; Region: PHA02517 296591001066 HTH-like domain; Region: HTH_21; pfam13276 296591001067 Integrase core domain; Region: rve; cl01316 296591001068 Integrase core domain; Region: rve_3; cl15866 296591001069 Helix-turn-helix domains; Region: HTH; cl00088 296591001070 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 296591001071 Transposase domain (DUF772); Region: DUF772; cl15789 296591001072 Transcriptional regulators [Transcription]; Region: PurR; COG1609 296591001073 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 296591001074 DNA binding site [nucleotide binding] 296591001075 domain linker motif; other site 296591001076 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 296591001077 dimerization interface [polypeptide binding]; other site 296591001078 ligand binding site [chemical binding]; other site 296591001079 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 296591001080 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591001081 NAD(P) binding site [chemical binding]; other site 296591001082 active site 296591001083 DoxX; Region: DoxX; cl00976 296591001084 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 296591001085 YCII-related domain; Region: YCII; cl00999 296591001086 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 296591001087 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 296591001088 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 296591001089 homotrimer interaction site [polypeptide binding]; other site 296591001090 putative active site [active] 296591001091 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 296591001092 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 296591001093 TM-ABC transporter signature motif; other site 296591001094 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 296591001095 TM-ABC transporter signature motif; other site 296591001096 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 296591001097 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591001098 Walker A/P-loop; other site 296591001099 ATP binding site [chemical binding]; other site 296591001100 Q-loop/lid; other site 296591001101 ABC transporter signature motif; other site 296591001102 Walker B; other site 296591001103 D-loop; other site 296591001104 H-loop/switch region; other site 296591001105 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591001106 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 296591001107 Walker A/P-loop; other site 296591001108 ATP binding site [chemical binding]; other site 296591001109 Q-loop/lid; other site 296591001110 ABC transporter signature motif; other site 296591001111 Walker B; other site 296591001112 D-loop; other site 296591001113 H-loop/switch region; other site 296591001114 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 296591001115 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 296591001116 active site 296591001117 classical (c) SDRs; Region: SDR_c; cd05233 296591001118 NAD(P) binding site [chemical binding]; other site 296591001119 active site 296591001120 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 296591001121 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 296591001122 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591001123 NAD(P) binding site [chemical binding]; other site 296591001124 Cupin domain; Region: Cupin_2; cl09118 296591001125 NMT1-like family; Region: NMT1_2; cl15260 296591001126 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 296591001127 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591001128 NMT1-like family; Region: NMT1_2; cl15260 296591001129 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 296591001130 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 296591001131 putative ligand binding site [chemical binding]; other site 296591001132 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 296591001133 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 296591001134 trimer interface [polypeptide binding]; other site 296591001135 putative metal binding site [ion binding]; other site 296591001136 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 296591001137 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 296591001138 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 296591001139 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 296591001140 DNA binding site [nucleotide binding] 296591001141 Int/Topo IB signature motif; other site 296591001142 active site 296591001143 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 296591001144 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591001145 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 296591001146 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 296591001147 Helix-turn-helix domains; Region: HTH; cl00088 296591001148 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591001149 allantoate amidohydrolase; Reviewed; Region: PRK12893 296591001150 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 296591001151 active site 296591001152 metal binding site [ion binding]; metal-binding site 296591001153 dimer interface [polypeptide binding]; other site 296591001154 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 296591001155 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 296591001156 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 296591001157 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 296591001158 dimer interface [polypeptide binding]; other site 296591001159 conserved gate region; other site 296591001160 putative PBP binding loops; other site 296591001161 ABC-ATPase subunit interface; other site 296591001162 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 296591001163 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 296591001164 dimer interface [polypeptide binding]; other site 296591001165 conserved gate region; other site 296591001166 putative PBP binding loops; other site 296591001167 ABC-ATPase subunit interface; other site 296591001168 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 296591001169 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 296591001170 Walker A/P-loop; other site 296591001171 ATP binding site [chemical binding]; other site 296591001172 Q-loop/lid; other site 296591001173 ABC transporter signature motif; other site 296591001174 Walker B; other site 296591001175 D-loop; other site 296591001176 H-loop/switch region; other site 296591001177 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591001178 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 296591001179 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 296591001180 Walker A/P-loop; other site 296591001181 ATP binding site [chemical binding]; other site 296591001182 Q-loop/lid; other site 296591001183 ABC transporter signature motif; other site 296591001184 Walker B; other site 296591001185 D-loop; other site 296591001186 H-loop/switch region; other site 296591001187 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591001188 Amidase; Region: Amidase; cl11426 296591001189 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 296591001190 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 296591001191 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 296591001192 C-terminal domain interface [polypeptide binding]; other site 296591001193 GSH binding site (G-site) [chemical binding]; other site 296591001194 dimer interface [polypeptide binding]; other site 296591001195 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 296591001196 N-terminal domain interface [polypeptide binding]; other site 296591001197 dimer interface [polypeptide binding]; other site 296591001198 substrate binding pocket (H-site) [chemical binding]; other site 296591001199 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 296591001200 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 296591001201 putative substrate translocation pore; other site 296591001202 Predicted methyltransferases [General function prediction only]; Region: COG0313 296591001203 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 296591001204 Restriction endonuclease; Region: Mrr_cat; cl00516 296591001205 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 296591001206 dimer interface [polypeptide binding]; other site 296591001207 active site 296591001208 outer membrane lipoprotein; Provisional; Region: PRK11023 296591001209 BON domain; Region: BON; cl02771 296591001210 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 296591001211 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591001212 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 296591001213 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 296591001214 Walker A motif; other site 296591001215 ATP binding site [chemical binding]; other site 296591001216 Walker B motif; other site 296591001217 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 296591001218 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 296591001219 Walker A motif; other site 296591001220 ATP binding site [chemical binding]; other site 296591001221 Walker B motif; other site 296591001222 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 296591001223 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 296591001224 catalytic residue [active] 296591001225 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 296591001226 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 296591001227 Helix-turn-helix domains; Region: HTH; cl00088 296591001228 Helix-turn-helix domains; Region: HTH; cl00088 296591001229 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 296591001230 Helix-turn-helix domains; Region: HTH; cl00088 296591001231 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591001232 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 296591001233 substrate binding pocket [chemical binding]; other site 296591001234 membrane-bound complex binding site; other site 296591001235 hinge residues; other site 296591001236 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 296591001237 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 296591001238 dimer interface [polypeptide binding]; other site 296591001239 conserved gate region; other site 296591001240 putative PBP binding loops; other site 296591001241 ABC-ATPase subunit interface; other site 296591001242 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 296591001243 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 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 Porin subfamily; Region: Porin_2; pfam02530 296591001252 MarC family integral membrane protein; Region: MarC; cl00919 296591001253 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 296591001254 Proline dehydrogenase; Region: Pro_dh; cl03282 296591001255 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 296591001256 Glutamate binding site [chemical binding]; other site 296591001257 NAD binding site [chemical binding]; other site 296591001258 catalytic residues [active] 296591001259 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 296591001260 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 296591001261 Walker A motif; other site 296591001262 ATP binding site [chemical binding]; other site 296591001263 Walker B motif; other site 296591001264 arginine finger; other site 296591001265 Adenosine specific kinase; Region: Adenosine_kin; cl00796 296591001266 Protein required for attachment to host cells; Region: Host_attach; cl02398 296591001267 acetylornithine deacetylase; Validated; Region: PRK06915 296591001268 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like2; cd03895 296591001269 metal binding site [ion binding]; metal-binding site 296591001270 dimer interface [polypeptide binding]; other site 296591001271 Cupin domain; Region: Cupin_2; cl09118 296591001272 amidase; Provisional; Region: PRK07487 296591001273 Amidase; Region: Amidase; cl11426 296591001274 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 296591001275 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 296591001276 inhibitor-cofactor binding pocket; inhibition site 296591001277 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591001278 catalytic residue [active] 296591001279 Phosphotransferase enzyme family; Region: APH; pfam01636 296591001280 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591001281 active site 296591001282 ATP binding site [chemical binding]; other site 296591001283 substrate binding site [chemical binding]; other site 296591001284 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 296591001285 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 296591001286 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591001287 DNA-binding site [nucleotide binding]; DNA binding site 296591001288 FCD domain; Region: FCD; cl11656 296591001289 EamA-like transporter family; Region: EamA; cl01037 296591001290 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 296591001291 allantoate amidohydrolase; Reviewed; Region: PRK12893 296591001292 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 296591001293 active site 296591001294 metal binding site [ion binding]; metal-binding site 296591001295 dimer interface [polypeptide binding]; other site 296591001296 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 296591001297 aminotransferase; Provisional; Region: PRK06105 296591001298 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 296591001299 inhibitor-cofactor binding pocket; inhibition site 296591001300 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591001301 catalytic residue [active] 296591001302 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 296591001303 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591001304 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 296591001305 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 296591001306 Walker A/P-loop; other site 296591001307 ATP binding site [chemical binding]; other site 296591001308 Q-loop/lid; other site 296591001309 ABC transporter signature motif; other site 296591001310 Walker B; other site 296591001311 D-loop; other site 296591001312 H-loop/switch region; other site 296591001313 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591001314 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 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 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591001323 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 296591001324 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 296591001325 dimer interface [polypeptide binding]; other site 296591001326 conserved gate region; other site 296591001327 putative PBP binding loops; other site 296591001328 ABC-ATPase subunit interface; other site 296591001329 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 296591001330 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 296591001331 dimer interface [polypeptide binding]; other site 296591001332 conserved gate region; other site 296591001333 putative PBP binding loops; other site 296591001334 ABC-ATPase subunit interface; other site 296591001335 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 296591001336 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 296591001337 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 296591001338 intersubunit interface [polypeptide binding]; other site 296591001339 active site 296591001340 Zn2+ binding site [ion binding]; other site 296591001341 GAF domain; Region: GAF; cl15785 296591001342 putative diguanylate cyclase; Provisional; Region: PRK09776 296591001343 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 296591001344 putative active site [active] 296591001345 heme pocket [chemical binding]; other site 296591001346 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 296591001347 PAS domain; Region: PAS_9; pfam13426 296591001348 putative active site [active] 296591001349 heme pocket [chemical binding]; other site 296591001350 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 296591001351 metal binding site [ion binding]; metal-binding site 296591001352 active site 296591001353 I-site; other site 296591001354 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 296591001355 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 296591001356 LrgB-like family; Region: LrgB; cl00596 296591001357 LrgA family; Region: LrgA; cl00608 296591001358 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 296591001359 FAD binding domain; Region: FAD_binding_4; pfam01565 296591001360 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591001361 NMT1-like family; Region: NMT1_2; cl15260 296591001362 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 296591001363 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 296591001364 active site pocket [active] 296591001365 Transcriptional regulators [Transcription]; Region: PurR; COG1609 296591001366 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 296591001367 DNA binding site [nucleotide binding] 296591001368 domain linker motif; other site 296591001369 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 296591001370 putative dimerization interface [polypeptide binding]; other site 296591001371 putative ligand binding site [chemical binding]; other site 296591001372 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 296591001373 Helix-turn-helix domains; Region: HTH; cl00088 296591001374 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 296591001375 dimerization interface [polypeptide binding]; other site 296591001376 substrate binding pocket [chemical binding]; other site 296591001377 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 296591001378 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 296591001379 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 296591001380 putative active site [active] 296591001381 putative substrate binding site [chemical binding]; other site 296591001382 putative cosubstrate binding site; other site 296591001383 catalytic site [active] 296591001384 Protein of unknown function, DUF399; Region: DUF399; cl01139 296591001385 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 296591001386 Putative ammonia monooxygenase; Region: AmoA; pfam05145 296591001387 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 296591001388 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 296591001389 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 296591001390 Transcriptional regulator [Transcription]; Region: IclR; COG1414 296591001391 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591001392 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 296591001393 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 296591001394 MarC family integral membrane protein; Region: MarC; cl00919 296591001395 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591001396 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 296591001397 putative metal binding site [ion binding]; other site 296591001398 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4398 296591001399 FIST N domain; Region: FIST; cl10701 296591001400 FIST C domain; Region: FIST_C; pfam10442 296591001401 Protein of unknown function (DUF497); Region: DUF497; cl01108 296591001402 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 296591001403 Major Facilitator Superfamily; Region: MFS_1; pfam07690 296591001404 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 296591001405 putative substrate translocation pore; other site 296591001406 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 296591001407 putative acyl-acceptor binding pocket; other site 296591001408 Predicted membrane protein [Function unknown]; Region: COG4682 296591001409 yiaA/B two helix domain; Region: YiaAB; cl01759 296591001410 yiaA/B two helix domain; Region: YiaAB; cl01759 296591001411 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 296591001412 Double zinc ribbon; Region: DZR; pfam12773 296591001413 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 296591001414 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 296591001415 active site 296591001416 catalytic tetrad [active] 296591001417 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 296591001418 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 296591001419 GtrA-like protein; Region: GtrA; cl00971 296591001420 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 296591001421 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 296591001422 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 296591001423 putative active site [active] 296591001424 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 296591001425 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 296591001426 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 296591001427 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 296591001428 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 296591001429 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 296591001430 generic binding surface II; other site 296591001431 ssDNA binding site; other site 296591001432 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 296591001433 ATP binding site [chemical binding]; other site 296591001434 putative Mg++ binding site [ion binding]; other site 296591001435 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 296591001436 nucleotide binding region [chemical binding]; other site 296591001437 ATP-binding site [chemical binding]; other site 296591001438 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 296591001439 Predicted transcriptional regulator [Transcription]; Region: COG2944 296591001440 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 296591001441 Helix-turn-helix domains; Region: HTH; cl00088 296591001442 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 296591001443 dimerization interface [polypeptide binding]; other site 296591001444 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 296591001445 UbiA prenyltransferase family; Region: UbiA; cl00337 296591001446 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 296591001447 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591001448 glycerol kinase; Provisional; Region: glpK; PRK00047 296591001449 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 296591001450 N- and C-terminal domain interface [polypeptide binding]; other site 296591001451 active site 296591001452 MgATP binding site [chemical binding]; other site 296591001453 catalytic site [active] 296591001454 metal binding site [ion binding]; metal-binding site 296591001455 glycerol binding site [chemical binding]; other site 296591001456 homotetramer interface [polypeptide binding]; other site 296591001457 homodimer interface [polypeptide binding]; other site 296591001458 FBP binding site [chemical binding]; other site 296591001459 protein IIAGlc interface [polypeptide binding]; other site 296591001460 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 296591001461 Helix-turn-helix domains; Region: HTH; cl00088 296591001462 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 296591001463 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 296591001464 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591001465 Walker A/P-loop; other site 296591001466 ATP binding site [chemical binding]; other site 296591001467 Q-loop/lid; other site 296591001468 ABC transporter signature motif; other site 296591001469 Walker B; other site 296591001470 D-loop; other site 296591001471 H-loop/switch region; other site 296591001472 TOBE domain; Region: TOBE_2; cl01440 296591001473 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 296591001474 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 296591001475 Walker A/P-loop; other site 296591001476 ATP binding site [chemical binding]; other site 296591001477 Q-loop/lid; other site 296591001478 ABC transporter signature motif; other site 296591001479 Walker B; other site 296591001480 D-loop; other site 296591001481 H-loop/switch region; other site 296591001482 TOBE domain; Region: TOBE_2; cl01440 296591001483 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 296591001484 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 296591001485 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 296591001486 putative PBP binding loops; other site 296591001487 dimer interface [polypeptide binding]; other site 296591001488 ABC-ATPase subunit interface; other site 296591001489 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 296591001490 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 296591001491 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 296591001492 dimer interface [polypeptide binding]; other site 296591001493 conserved gate region; other site 296591001494 putative PBP binding loops; other site 296591001495 ABC-ATPase subunit interface; other site 296591001496 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 296591001497 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 296591001498 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 296591001499 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 296591001500 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 296591001501 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 296591001502 KOW motif; Region: KOW; cl00354 296591001503 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 296591001504 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 296591001505 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 296591001506 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 296591001507 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 296591001508 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 296591001509 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 296591001510 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 296591001511 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 296591001512 5S rRNA interface [nucleotide binding]; other site 296591001513 23S rRNA interface [nucleotide binding]; other site 296591001514 L5 interface [polypeptide binding]; other site 296591001515 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 296591001516 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 296591001517 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 296591001518 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 296591001519 23S rRNA binding site [nucleotide binding]; other site 296591001520 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 296591001521 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 296591001522 SecY translocase; Region: SecY; pfam00344 296591001523 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 296591001524 rRNA binding site [nucleotide binding]; other site 296591001525 predicted 30S ribosome binding site; other site 296591001526 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 296591001527 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 296591001528 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 296591001529 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 296591001530 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 296591001531 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 296591001532 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 296591001533 RNA binding surface [nucleotide binding]; other site 296591001534 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 296591001535 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 296591001536 alphaNTD homodimer interface [polypeptide binding]; other site 296591001537 alphaNTD - beta interaction site [polypeptide binding]; other site 296591001538 alphaNTD - beta' interaction site [polypeptide binding]; other site 296591001539 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 296591001540 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 296591001541 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 296591001542 Domain of unknown function (DUF802); Region: DUF802; pfam05650 296591001543 putative mechanosensitive channel protein; Provisional; Region: PRK10929 296591001544 hypothetical protein; Provisional; Region: PRK09040 296591001545 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 296591001546 ligand binding site [chemical binding]; other site 296591001547 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 296591001548 Dodecin; Region: Dodecin; cl01328 296591001549 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 296591001550 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 296591001551 active site 1 [active] 296591001552 dimer interface [polypeptide binding]; other site 296591001553 hexamer interface [polypeptide binding]; other site 296591001554 active site 2 [active] 296591001555 Helix-turn-helix domains; Region: HTH; cl00088 296591001556 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 296591001557 dimerization interface [polypeptide binding]; other site 296591001558 EamA-like transporter family; Region: EamA; cl01037 296591001559 Uncharacterized conserved protein [Function unknown]; Region: COG2128 296591001560 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 296591001561 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591001562 classical (c) SDRs; Region: SDR_c; cd05233 296591001563 NAD(P) binding site [chemical binding]; other site 296591001564 active site 296591001565 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591001566 Helix-turn-helix domains; Region: HTH; cl00088 296591001567 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 296591001568 putative effector binding pocket; other site 296591001569 dimerization interface [polypeptide binding]; other site 296591001570 Helix-turn-helix domains; Region: HTH; cl00088 296591001571 LysR family transcriptional regulator; Provisional; Region: PRK14997 296591001572 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 296591001573 putative effector binding pocket; other site 296591001574 putative dimerization interface [polypeptide binding]; other site 296591001575 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 296591001576 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 296591001577 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591001578 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591001579 Domain of unknown function (DUF336); Region: DUF336; cl01249 296591001580 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 296591001581 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 296591001582 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 296591001583 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 296591001584 active site 296591001585 motif I; other site 296591001586 motif II; other site 296591001587 Sodium:solute symporter family; Region: SSF; cl00456 296591001588 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 296591001589 Protein of unknown function, DUF485; Region: DUF485; cl01231 296591001590 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 296591001591 propionate catabolism operon regulatory protein PrpR; Region: propionate_PrpR; TIGR02329 296591001592 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 296591001593 Walker A motif; other site 296591001594 ATP binding site [chemical binding]; other site 296591001595 Walker B motif; other site 296591001596 arginine finger; other site 296591001597 Helix-turn-helix domains; Region: HTH; cl00088 296591001598 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591001599 Helix-turn-helix domains; Region: HTH; cl00088 296591001600 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 296591001601 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591001602 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 296591001603 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 296591001604 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 296591001605 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 296591001606 metal binding site [ion binding]; metal-binding site 296591001607 substrate binding pocket [chemical binding]; other site 296591001608 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 296591001609 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 296591001610 catalytic residues [active] 296591001611 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 296591001612 Moco binding site; other site 296591001613 metal coordination site [ion binding]; other site 296591001614 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 296591001615 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 296591001616 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 296591001617 active site 296591001618 phosphorylation site [posttranslational modification] 296591001619 intermolecular recognition site; other site 296591001620 dimerization interface [polypeptide binding]; other site 296591001621 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 296591001622 DNA binding site [nucleotide binding] 296591001623 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 296591001624 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 296591001625 dimer interface [polypeptide binding]; other site 296591001626 phosphorylation site [posttranslational modification] 296591001627 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 296591001628 ATP binding site [chemical binding]; other site 296591001629 Mg2+ binding site [ion binding]; other site 296591001630 G-X-G motif; other site 296591001631 Helix-turn-helix domains; Region: HTH; cl00088 296591001632 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 296591001633 putative substrate translocation pore; other site 296591001634 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 296591001635 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591001636 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591001637 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 296591001638 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 296591001639 homodimer interface [polypeptide binding]; other site 296591001640 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591001641 catalytic residue [active] 296591001642 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591001643 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591001644 DNA-binding site [nucleotide binding]; DNA binding site 296591001645 FCD domain; Region: FCD; cl11656 296591001646 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 296591001647 dihydropyrimidinase; Provisional; Region: PRK13404 296591001648 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 296591001649 tetramer interface [polypeptide binding]; other site 296591001650 active site 296591001651 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 296591001652 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591001653 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591001654 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 296591001655 DctM-like transporters; Region: DctM; pfam06808 296591001656 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 296591001657 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591001658 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 296591001659 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 296591001660 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 296591001661 Amidase; Region: Amidase; cl11426 296591001662 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591001663 NMT1-like family; Region: NMT1_2; cl15260 296591001664 Response regulator receiver domain; Region: Response_reg; pfam00072 296591001665 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 296591001666 active site 296591001667 phosphorylation site [posttranslational modification] 296591001668 intermolecular recognition site; other site 296591001669 dimerization interface [polypeptide binding]; other site 296591001670 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 296591001671 DNA binding residues [nucleotide binding] 296591001672 Sodium:solute symporter family; Region: SSF; cl00456 296591001673 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 296591001674 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 296591001675 dimer interface [polypeptide binding]; other site 296591001676 phosphorylation site [posttranslational modification] 296591001677 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 296591001678 ATP binding site [chemical binding]; other site 296591001679 Mg2+ binding site [ion binding]; other site 296591001680 G-X-G motif; other site 296591001681 Response regulator receiver domain; Region: Response_reg; pfam00072 296591001682 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 296591001683 active site 296591001684 phosphorylation site [posttranslational modification] 296591001685 intermolecular recognition site; other site 296591001686 dimerization interface [polypeptide binding]; other site 296591001687 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 296591001688 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591001689 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 296591001690 putative ligand binding site [chemical binding]; other site 296591001691 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 296591001692 TM-ABC transporter signature motif; other site 296591001693 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 296591001694 TM-ABC transporter signature motif; other site 296591001695 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 296591001696 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 296591001697 Walker A/P-loop; other site 296591001698 ATP binding site [chemical binding]; other site 296591001699 Q-loop/lid; other site 296591001700 ABC transporter signature motif; other site 296591001701 Walker B; other site 296591001702 D-loop; other site 296591001703 H-loop/switch region; other site 296591001704 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 296591001705 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 296591001706 Walker A/P-loop; other site 296591001707 ATP binding site [chemical binding]; other site 296591001708 Q-loop/lid; other site 296591001709 ABC transporter signature motif; other site 296591001710 Walker B; other site 296591001711 D-loop; other site 296591001712 H-loop/switch region; other site 296591001713 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 296591001714 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 296591001715 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 296591001716 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 296591001717 Predicted amidohydrolase [General function prediction only]; Region: COG0388 296591001718 multimer interface [polypeptide binding]; other site 296591001719 active site 296591001720 catalytic triad [active] 296591001721 dimer interface [polypeptide binding]; other site 296591001722 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 296591001723 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 296591001724 XdhC Rossmann domain; Region: XdhC_C; pfam13478 296591001725 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 296591001726 putative hydrophobic ligand binding site [chemical binding]; other site 296591001727 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 296591001728 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 296591001729 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 296591001730 metal ion-dependent adhesion site (MIDAS); other site 296591001731 MoxR-like ATPases [General function prediction only]; Region: COG0714 296591001732 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 296591001733 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 296591001734 carbon-monoxide dehydrogenase, large subunit; Region: CO_dehy_Mo_lg; TIGR02416 296591001735 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 296591001736 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 296591001737 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 296591001738 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 296591001739 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 296591001740 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591001741 NMT1-like family; Region: NMT1_2; cl15260 296591001742 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 296591001743 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 296591001744 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591001745 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591001746 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591001747 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591001748 active site 296591001749 Uncharacterized conserved protein [Function unknown]; Region: COG3777 296591001750 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 296591001751 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 296591001752 putative active site [active] 296591001753 putative catalytic site [active] 296591001754 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591001755 NMT1-like family; Region: NMT1_2; cl15260 296591001756 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591001757 Helix-turn-helix domains; Region: HTH; cl00088 296591001758 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 296591001759 putative dimerization interface [polypeptide binding]; other site 296591001760 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 296591001761 homotrimer interaction site [polypeptide binding]; other site 296591001762 putative active site [active] 296591001763 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 296591001764 active site 296591001765 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 296591001766 AMP-binding enzyme; Region: AMP-binding; cl15778 296591001767 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591001768 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591001769 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591001770 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 296591001771 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 296591001772 active site 296591001773 enoyl-CoA hydratase; Provisional; Region: PRK06688 296591001774 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 296591001775 substrate binding site [chemical binding]; other site 296591001776 oxyanion hole (OAH) forming residues; other site 296591001777 trimer interface [polypeptide binding]; other site 296591001778 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 296591001779 Helix-turn-helix domains; Region: HTH; cl00088 296591001780 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 296591001781 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591001782 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 296591001783 active site 296591001784 FMN binding site [chemical binding]; other site 296591001785 substrate binding site [chemical binding]; other site 296591001786 homotetramer interface [polypeptide binding]; other site 296591001787 catalytic residue [active] 296591001788 Biofilm formation and stress response factor; Region: BsmA; cl01794 296591001789 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 296591001790 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591001791 NMT1-like family; Region: NMT1_2; cl15260 296591001792 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591001793 NMT1-like family; Region: NMT1_2; cl15260 296591001794 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 296591001795 AMP-binding enzyme; Region: AMP-binding; cl15778 296591001796 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591001797 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 296591001798 Walker A/P-loop; other site 296591001799 ATP binding site [chemical binding]; other site 296591001800 Q-loop/lid; other site 296591001801 ABC transporter signature motif; other site 296591001802 Walker B; other site 296591001803 D-loop; other site 296591001804 H-loop/switch region; other site 296591001805 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 296591001806 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591001807 putative ligand binding site [chemical binding]; other site 296591001808 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 296591001809 TM-ABC transporter signature motif; other site 296591001810 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 296591001811 TM-ABC transporter signature motif; other site 296591001812 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591001813 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 296591001814 Walker A/P-loop; other site 296591001815 ATP binding site [chemical binding]; other site 296591001816 Q-loop/lid; other site 296591001817 ABC transporter signature motif; other site 296591001818 Walker B; other site 296591001819 D-loop; other site 296591001820 H-loop/switch region; other site 296591001821 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 296591001822 AMP-binding enzyme; Region: AMP-binding; cl15778 296591001823 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591001824 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 296591001825 ligand binding site [chemical binding]; other site 296591001826 flexible hinge region; other site 296591001827 Helix-turn-helix domains; Region: HTH; cl00088 296591001828 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 296591001829 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 296591001830 RNA binding surface [nucleotide binding]; other site 296591001831 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 296591001832 active site 296591001833 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 296591001834 Response regulator receiver domain; Region: Response_reg; pfam00072 296591001835 active site 296591001836 phosphorylation site [posttranslational modification] 296591001837 intermolecular recognition site; other site 296591001838 dimerization interface [polypeptide binding]; other site 296591001839 Spore Coat Protein U domain; Region: SCPU; cl02253 296591001840 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 296591001841 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 296591001842 PapC C-terminal domain; Region: PapC_C; pfam13953 296591001843 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 296591001844 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 296591001845 heat shock protein 90; Provisional; Region: PRK05218 296591001846 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 296591001847 ATP binding site [chemical binding]; other site 296591001848 Mg2+ binding site [ion binding]; other site 296591001849 G-X-G motif; other site 296591001850 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 296591001851 HipA N-terminal domain; Region: Couple_hipA; cl11853 296591001852 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 296591001853 HipA-like N-terminal domain; Region: HipA_N; pfam07805 296591001854 HipA-like C-terminal domain; Region: HipA_C; pfam07804 296591001855 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 296591001856 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 296591001857 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591001858 NMT1-like family; Region: NMT1_2; cl15260 296591001859 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591001860 NMT1-like family; Region: NMT1_2; cl15260 296591001861 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591001862 Phosphotransferase enzyme family; Region: APH; pfam01636 296591001863 OsmC-like protein; Region: OsmC; cl00767 296591001864 Helix-turn-helix domains; Region: HTH; cl00088 296591001865 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 296591001866 RNA/DNA binding site [nucleotide binding]; other site 296591001867 RRM dimerization site [polypeptide binding]; other site 296591001868 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591001869 Methyltransferase domain; Region: Methyltransf_31; pfam13847 296591001870 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 296591001871 Helix-turn-helix domains; Region: HTH; cl00088 296591001872 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 296591001873 dimerization interface [polypeptide binding]; other site 296591001874 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 296591001875 multimer interface [polypeptide binding]; other site 296591001876 heterodimer interface [polypeptide binding]; other site 296591001877 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 296591001878 active site 296591001879 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 296591001880 heterodimer interface [polypeptide binding]; other site 296591001881 active site 296591001882 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 296591001883 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 296591001884 GAF domain; Region: GAF; cl15785 296591001885 ABC-2 type transporter; Region: ABC2_membrane; cl11417 296591001886 nodulation ABC transporter NodI; Provisional; Region: PRK13537 296591001887 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 296591001888 Walker A/P-loop; other site 296591001889 ATP binding site [chemical binding]; other site 296591001890 Q-loop/lid; other site 296591001891 ABC transporter signature motif; other site 296591001892 Walker B; other site 296591001893 D-loop; other site 296591001894 H-loop/switch region; other site 296591001895 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 296591001896 FAD binding pocket [chemical binding]; other site 296591001897 FAD binding motif [chemical binding]; other site 296591001898 phosphate binding motif [ion binding]; other site 296591001899 NAD binding pocket [chemical binding]; other site 296591001900 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 296591001901 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 296591001902 ATP-grasp domain; Region: ATP-grasp_4; cl03087 296591001903 Mechanosensitive ion channel; Region: MS_channel; pfam00924 296591001904 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 296591001905 Helix-turn-helix domains; Region: HTH; cl00088 296591001906 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 296591001907 putative dimerization interface [polypeptide binding]; other site 296591001908 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591001909 NMT1-like family; Region: NMT1_2; cl15260 296591001910 tricarballylate dehydrogenase; Validated; Region: PRK08274 296591001911 tricarballylate utilization protein B; Provisional; Region: PRK15033 296591001912 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 296591001913 AMP nucleosidase; Provisional; Region: PRK08292 296591001914 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 296591001915 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 296591001916 glutathione reductase; Validated; Region: PRK06116 296591001917 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591001918 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 296591001919 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591001920 Helix-turn-helix domains; Region: HTH; cl00088 296591001921 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 296591001922 putative effector binding pocket; other site 296591001923 putative dimerization interface [polypeptide binding]; other site 296591001924 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 296591001925 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 296591001926 putative C-terminal domain interface [polypeptide binding]; other site 296591001927 putative GSH binding site (G-site) [chemical binding]; other site 296591001928 putative dimer interface [polypeptide binding]; other site 296591001929 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 296591001930 putative N-terminal domain interface [polypeptide binding]; other site 296591001931 putative dimer interface [polypeptide binding]; other site 296591001932 putative substrate binding pocket (H-site) [chemical binding]; other site 296591001933 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 296591001934 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 296591001935 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 296591001936 Helix-turn-helix domains; Region: HTH; cl00088 296591001937 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 296591001938 dimerization interface [polypeptide binding]; other site 296591001939 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 296591001940 enoyl-CoA hydratase; Provisional; Region: PRK05980 296591001941 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 296591001942 substrate binding site [chemical binding]; other site 296591001943 oxyanion hole (OAH) forming residues; other site 296591001944 trimer interface [polypeptide binding]; other site 296591001945 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 296591001946 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 296591001947 ATP binding site [chemical binding]; other site 296591001948 Mg++ binding site [ion binding]; other site 296591001949 motif III; other site 296591001950 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 296591001951 nucleotide binding region [chemical binding]; other site 296591001952 ATP-binding site [chemical binding]; other site 296591001953 DbpA RNA binding domain; Region: DbpA; pfam03880 296591001954 lytic murein transglycosylase; Provisional; Region: PRK11619 296591001955 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 296591001956 N-acetyl-D-glucosamine binding site [chemical binding]; other site 296591001957 catalytic residue [active] 296591001958 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 296591001959 Transposase; Region: DEDD_Tnp_IS110; pfam01548 296591001960 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 296591001961 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 296591001962 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 296591001963 homotrimer interaction site [polypeptide binding]; other site 296591001964 putative active site [active] 296591001965 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 296591001966 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 296591001967 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 296591001968 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 296591001969 dimer interface [polypeptide binding]; other site 296591001970 conserved gate region; other site 296591001971 putative PBP binding loops; other site 296591001972 ABC-ATPase subunit interface; other site 296591001973 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 296591001974 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 296591001975 dimer interface [polypeptide binding]; other site 296591001976 conserved gate region; other site 296591001977 putative PBP binding loops; other site 296591001978 ABC-ATPase subunit interface; other site 296591001979 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 296591001980 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 296591001981 Walker A/P-loop; other site 296591001982 ATP binding site [chemical binding]; other site 296591001983 Q-loop/lid; other site 296591001984 ABC transporter signature motif; other site 296591001985 Walker B; other site 296591001986 D-loop; other site 296591001987 H-loop/switch region; other site 296591001988 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591001989 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 296591001990 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 296591001991 Walker A/P-loop; other site 296591001992 ATP binding site [chemical binding]; other site 296591001993 Q-loop/lid; other site 296591001994 ABC transporter signature motif; other site 296591001995 Walker B; other site 296591001996 D-loop; other site 296591001997 H-loop/switch region; other site 296591001998 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591001999 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 296591002000 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 296591002001 dimer interface [polypeptide binding]; other site 296591002002 active site 296591002003 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 296591002004 substrate binding site [chemical binding]; other site 296591002005 catalytic residue [active] 296591002006 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 296591002007 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 296591002008 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 296591002009 putative active site [active] 296591002010 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 296591002011 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 296591002012 active site 296591002013 putative substrate binding pocket [chemical binding]; other site 296591002014 Helix-turn-helix domains; Region: HTH; cl00088 296591002015 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 296591002016 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 296591002017 dimerization interface [polypeptide binding]; other site 296591002018 substrate binding pocket [chemical binding]; other site 296591002019 TfoX N-terminal domain; Region: TfoX_N; cl01167 296591002020 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 296591002021 Sensors of blue-light using FAD; Region: BLUF; cl04855 296591002022 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 296591002023 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 296591002024 Substrate binding site; other site 296591002025 Mg++ binding site; other site 296591002026 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 296591002027 active site 296591002028 substrate binding site [chemical binding]; other site 296591002029 CoA binding site [chemical binding]; other site 296591002030 EamA-like transporter family; Region: EamA; cl01037 296591002031 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591002032 Helix-turn-helix domains; Region: HTH; cl00088 296591002033 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 296591002034 dimerization interface [polypeptide binding]; other site 296591002035 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 296591002036 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 296591002037 putative DNA binding site [nucleotide binding]; other site 296591002038 putative Zn2+ binding site [ion binding]; other site 296591002039 Helix-turn-helix domains; Region: HTH; cl00088 296591002040 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 296591002041 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 296591002042 glutaminase active site [active] 296591002043 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 296591002044 dimer interface [polypeptide binding]; other site 296591002045 active site 296591002046 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 296591002047 dimer interface [polypeptide binding]; other site 296591002048 active site 296591002049 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 296591002050 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 296591002051 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 296591002052 dimer interface [polypeptide binding]; other site 296591002053 active site 296591002054 heme binding site [chemical binding]; other site 296591002055 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 296591002056 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591002057 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591002058 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 296591002059 ligand binding site [chemical binding]; other site 296591002060 flexible hinge region; other site 296591002061 Helix-turn-helix domains; Region: HTH; cl00088 296591002062 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 296591002063 putative FMN binding site [chemical binding]; other site 296591002064 acyl-CoA synthetase; Validated; Region: PRK08162 296591002065 AMP-binding enzyme; Region: AMP-binding; cl15778 296591002066 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591002067 DoxX; Region: DoxX; cl00976 296591002068 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 296591002069 phenylhydantoinase; Validated; Region: PRK08323 296591002070 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 296591002071 tetramer interface [polypeptide binding]; other site 296591002072 active site 296591002073 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 296591002074 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 296591002075 inhibitor site; inhibition site 296591002076 active site 296591002077 dimer interface [polypeptide binding]; other site 296591002078 catalytic residue [active] 296591002079 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591002080 FAD dependent oxidoreductase; Region: DAO; pfam01266 296591002081 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 296591002082 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 296591002083 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 296591002084 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591002085 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 296591002086 substrate binding pocket [chemical binding]; other site 296591002087 membrane-bound complex binding site; other site 296591002088 hinge residues; other site 296591002089 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 296591002090 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 296591002091 dimer interface [polypeptide binding]; other site 296591002092 conserved gate region; other site 296591002093 putative PBP binding loops; other site 296591002094 ABC-ATPase subunit interface; other site 296591002095 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 296591002096 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 296591002097 putative PBP binding loops; other site 296591002098 dimer interface [polypeptide binding]; other site 296591002099 ABC-ATPase subunit interface; other site 296591002100 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 296591002101 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 296591002102 Walker A/P-loop; other site 296591002103 ATP binding site [chemical binding]; other site 296591002104 Q-loop/lid; other site 296591002105 ABC transporter signature motif; other site 296591002106 Walker B; other site 296591002107 D-loop; other site 296591002108 H-loop/switch region; other site 296591002109 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591002110 FCD domain; Region: FCD; cl11656 296591002111 RF-1 domain; Region: RF-1; cl02875 296591002112 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 296591002113 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 296591002114 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 296591002115 DNA binding site [nucleotide binding] 296591002116 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 296591002117 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 296591002118 putative ligand binding site [chemical binding]; other site 296591002119 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 296591002120 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 296591002121 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 296591002122 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 296591002123 dimer interface [polypeptide binding]; other site 296591002124 conserved gate region; other site 296591002125 putative PBP binding loops; other site 296591002126 ABC-ATPase subunit interface; other site 296591002127 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 296591002128 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 296591002129 dimer interface [polypeptide binding]; other site 296591002130 conserved gate region; other site 296591002131 putative PBP binding loops; other site 296591002132 ABC-ATPase subunit interface; other site 296591002133 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 296591002134 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 296591002135 Walker A/P-loop; other site 296591002136 ATP binding site [chemical binding]; other site 296591002137 Q-loop/lid; other site 296591002138 ABC transporter signature motif; other site 296591002139 Walker B; other site 296591002140 D-loop; other site 296591002141 H-loop/switch region; other site 296591002142 TOBE domain; Region: TOBE_2; cl01440 296591002143 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 296591002144 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591002145 Walker A/P-loop; other site 296591002146 ATP binding site [chemical binding]; other site 296591002147 Q-loop/lid; other site 296591002148 ABC transporter signature motif; other site 296591002149 Walker B; other site 296591002150 D-loop; other site 296591002151 H-loop/switch region; other site 296591002152 TOBE domain; Region: TOBE_2; cl01440 296591002153 DAK2 domain; Region: Dak2; cl03685 296591002154 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 296591002155 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 296591002156 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591002157 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 296591002158 putative ligand binding site [chemical binding]; other site 296591002159 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 296591002160 MASE1; Region: MASE1; pfam05231 296591002161 Histidine kinase; Region: HisKA_3; pfam07730 296591002162 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 296591002163 ATP binding site [chemical binding]; other site 296591002164 Mg2+ binding site [ion binding]; other site 296591002165 G-X-G motif; other site 296591002166 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 296591002167 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 296591002168 active site 296591002169 phosphorylation site [posttranslational modification] 296591002170 intermolecular recognition site; other site 296591002171 dimerization interface [polypeptide binding]; other site 296591002172 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 296591002173 DNA binding residues [nucleotide binding] 296591002174 dimerization interface [polypeptide binding]; other site 296591002175 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 296591002176 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 296591002177 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus...; Region: INT_pAE1; cd01188 296591002178 Int/Topo IB signature motif; other site 296591002179 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 296591002180 DNA binding site [nucleotide binding] 296591002181 Int/Topo IB signature motif; other site 296591002182 active site 296591002183 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 296591002184 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 296591002185 Int/Topo IB signature motif; other site 296591002186 Transposase domain (DUF772); Region: DUF772; cl15789 296591002187 Sulfate transporter family; Region: Sulfate_transp; cl15842 296591002188 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 296591002189 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 296591002190 ligand binding site [chemical binding]; other site 296591002191 flexible hinge region; other site 296591002192 FecR protein; Region: FecR; pfam04773 296591002193 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 296591002194 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 296591002195 ligand binding site [chemical binding]; other site 296591002196 CHASE2 domain; Region: CHASE2; cl01732 296591002197 cyclase homology domain; Region: CHD; cd07302 296591002198 nucleotidyl binding site; other site 296591002199 metal binding site [ion binding]; metal-binding site 296591002200 dimer interface [polypeptide binding]; other site 296591002201 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591002202 Helix-turn-helix domains; Region: HTH; cl00088 296591002203 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 296591002204 putative effector binding pocket; other site 296591002205 putative dimerization interface [polypeptide binding]; other site 296591002206 FtsH Extracellular; Region: FtsH_ext; pfam06480 296591002207 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 296591002208 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 296591002209 Walker A motif; other site 296591002210 ATP binding site [chemical binding]; other site 296591002211 Walker B motif; other site 296591002212 arginine finger; other site 296591002213 Peptidase family M41; Region: Peptidase_M41; pfam01434 296591002214 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 296591002215 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 296591002216 Cytochrome c; Region: Cytochrom_C; cl11414 296591002217 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 296591002218 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 296591002219 D-pathway; other site 296591002220 Low-spin heme binding site [chemical binding]; other site 296591002221 Putative water exit pathway; other site 296591002222 Binuclear center (active site) [active] 296591002223 K-pathway; other site 296591002224 Putative proton exit pathway; other site 296591002225 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 296591002226 Subunit I/III interface [polypeptide binding]; other site 296591002227 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 296591002228 Subunit I/III interface [polypeptide binding]; other site 296591002229 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 296591002230 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 296591002231 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 296591002232 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 296591002233 active site 296591002234 nucleophile elbow; other site 296591002235 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 296591002236 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 296591002237 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 296591002238 Ligand Binding Site [chemical binding]; other site 296591002239 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 296591002240 Transmembrane secretion effector; Region: MFS_3; pfam05977 296591002241 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 296591002242 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 296591002243 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 296591002244 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 296591002245 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 296591002246 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 296591002247 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 296591002248 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 296591002249 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 296591002250 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 296591002251 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 296591002252 putative dimer interface [polypeptide binding]; other site 296591002253 active site pocket [active] 296591002254 putative cataytic base [active] 296591002255 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 296591002256 threonine dehydratase; Reviewed; Region: PRK09224 296591002257 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 296591002258 tetramer interface [polypeptide binding]; other site 296591002259 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591002260 catalytic residue [active] 296591002261 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 296591002262 putative Ile/Val binding site [chemical binding]; other site 296591002263 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 296591002264 putative Ile/Val binding site [chemical binding]; other site 296591002265 OsmC-like protein; Region: OsmC; cl00767 296591002266 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 296591002267 diiron binding motif [ion binding]; other site 296591002268 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 296591002269 trimer interface [polypeptide binding]; other site 296591002270 eyelet of channel; other site 296591002271 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 296591002272 trimer interface [polypeptide binding]; other site 296591002273 eyelet of channel; other site 296591002274 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 296591002275 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 296591002276 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 296591002277 metal binding site [ion binding]; metal-binding site 296591002278 putative dimer interface [polypeptide binding]; other site 296591002279 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 296591002280 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 296591002281 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 296591002282 putative active site [active] 296591002283 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 296591002284 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 296591002285 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 296591002286 transaldolase-like protein; Provisional; Region: PTZ00411 296591002287 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 296591002288 active site 296591002289 dimer interface [polypeptide binding]; other site 296591002290 catalytic residue [active] 296591002291 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 296591002292 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 296591002293 active site 296591002294 dimer interface [polypeptide binding]; other site 296591002295 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 296591002296 dimer interface [polypeptide binding]; other site 296591002297 active site 296591002298 Helix-turn-helix domains; Region: HTH; cl00088 296591002299 Integrase core domain; Region: rve; cl01316 296591002300 Integrase core domain; Region: rve_3; cl15866 296591002301 Protein of unknown function (DUF805); Region: DUF805; cl01224 296591002302 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 296591002303 active site 296591002304 catalytic triad [active] 296591002305 oxyanion hole [active] 296591002306 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 296591002307 putative transposase OrfB; Reviewed; Region: PHA02517 296591002308 Integrase core domain; Region: rve; cl01316 296591002309 Integrase core domain; Region: rve_3; cl15866 296591002310 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 296591002311 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 296591002312 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 296591002313 ring oligomerisation interface [polypeptide binding]; other site 296591002314 ATP/Mg binding site [chemical binding]; other site 296591002315 stacking interactions; other site 296591002316 hinge regions; other site 296591002317 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 296591002318 oligomerisation interface [polypeptide binding]; other site 296591002319 mobile loop; other site 296591002320 roof hairpin; other site 296591002321 acetyl-CoA synthetase; Provisional; Region: PRK04319 296591002322 AMP-binding enzyme; Region: AMP-binding; cl15778 296591002323 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591002324 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 296591002325 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 296591002326 tetramer interface [polypeptide binding]; other site 296591002327 TPP-binding site [chemical binding]; other site 296591002328 heterodimer interface [polypeptide binding]; other site 296591002329 phosphorylation loop region [posttranslational modification] 296591002330 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 296591002331 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 296591002332 alpha subunit interface [polypeptide binding]; other site 296591002333 TPP binding site [chemical binding]; other site 296591002334 heterodimer interface [polypeptide binding]; other site 296591002335 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 296591002336 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 296591002337 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 296591002338 E3 interaction surface; other site 296591002339 lipoyl attachment site [posttranslational modification]; other site 296591002340 e3 binding domain; Region: E3_binding; pfam02817 296591002341 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 296591002342 Phosphopantetheine attachment site; Region: PP-binding; cl09936 296591002343 CHASE3 domain; Region: CHASE3; cl05000 296591002344 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 296591002345 Histidine kinase; Region: HisKA_3; pfam07730 296591002346 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 296591002347 ATP binding site [chemical binding]; other site 296591002348 Mg2+ binding site [ion binding]; other site 296591002349 G-X-G motif; other site 296591002350 S-adenosylmethionine synthetase; Validated; Region: PRK05250 296591002351 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 296591002352 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 296591002353 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 296591002354 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 296591002355 putative acyl-acceptor binding pocket; other site 296591002356 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 296591002357 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 296591002358 putative acyl-acceptor binding pocket; other site 296591002359 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591002360 Predicted GTPase [General function prediction only]; Region: COG0218 296591002361 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 296591002362 G1 box; other site 296591002363 GTP/Mg2+ binding site [chemical binding]; other site 296591002364 Switch I region; other site 296591002365 G2 box; other site 296591002366 G3 box; other site 296591002367 Switch II region; other site 296591002368 G4 box; other site 296591002369 G5 box; other site 296591002370 Cytochrome c; Region: Cytochrom_C; cl11414 296591002371 Cytochrome c; Region: Cytochrom_C; cl11414 296591002372 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 296591002373 ResB-like family; Region: ResB; pfam05140 296591002374 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 296591002375 TMAO/DMSO reductase; Reviewed; Region: PRK05363 296591002376 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 296591002377 Moco binding site; other site 296591002378 metal coordination site [ion binding]; other site 296591002379 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 296591002380 diaminopimelate decarboxylase; Region: lysA; TIGR01048 296591002381 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 296591002382 active site 296591002383 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 296591002384 substrate binding site [chemical binding]; other site 296591002385 catalytic residues [active] 296591002386 dimer interface [polypeptide binding]; other site 296591002387 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cd00503 296591002388 putative iron binding site [ion binding]; other site 296591002389 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 296591002390 Transglycosylase; Region: Transgly; cl07896 296591002391 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 296591002392 Competence protein A; Region: Competence_A; pfam11104 296591002393 Cell division protein FtsA; Region: FtsA; cl11496 296591002394 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 296591002395 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 296591002396 Pilus assembly protein, PilO; Region: PilO; cl01234 296591002397 Pilus assembly protein, PilP; Region: PilP; cl01235 296591002398 AMIN domain; Region: AMIN; pfam11741 296591002399 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 296591002400 Secretin and TonB N terminus short domain; Region: STN; cl06624 296591002401 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 296591002402 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 296591002403 shikimate kinase; Reviewed; Region: aroK; PRK00131 296591002404 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 296591002405 ADP binding site [chemical binding]; other site 296591002406 magnesium binding site [ion binding]; other site 296591002407 putative shikimate binding site; other site 296591002408 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 296591002409 active site 296591002410 dimer interface [polypeptide binding]; other site 296591002411 metal binding site [ion binding]; metal-binding site 296591002412 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 296591002413 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 296591002414 Zn2+ binding site [ion binding]; other site 296591002415 Mg2+ binding site [ion binding]; other site 296591002416 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 296591002417 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591002418 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 296591002419 putative ligand binding site [chemical binding]; other site 296591002420 Transposase IS200 like; Region: Y1_Tnp; cl00848 296591002421 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 296591002422 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 296591002423 active site 296591002424 dimer interface [polypeptide binding]; other site 296591002425 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 296591002426 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 296591002427 active site 296591002428 FMN binding site [chemical binding]; other site 296591002429 substrate binding site [chemical binding]; other site 296591002430 3Fe-4S cluster binding site [ion binding]; other site 296591002431 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 296591002432 domain interface; other site 296591002433 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 296591002434 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591002435 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 296591002436 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 296591002437 Walker A/P-loop; other site 296591002438 ATP binding site [chemical binding]; other site 296591002439 Q-loop/lid; other site 296591002440 ABC transporter signature motif; other site 296591002441 Walker B; other site 296591002442 D-loop; other site 296591002443 H-loop/switch region; other site 296591002444 Permease; Region: Permease; cl00510 296591002445 mce related protein; Region: MCE; pfam02470 296591002446 VacJ like lipoprotein; Region: VacJ; cl01073 296591002447 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 296591002448 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 296591002449 anti sigma factor interaction site; other site 296591002450 regulatory phosphorylation site [posttranslational modification]; other site 296591002451 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 296591002452 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 296591002453 Walker A/P-loop; other site 296591002454 ATP binding site [chemical binding]; other site 296591002455 Q-loop/lid; other site 296591002456 ABC transporter signature motif; other site 296591002457 Walker B; other site 296591002458 D-loop; other site 296591002459 H-loop/switch region; other site 296591002460 ABC-2 type transporter; Region: ABC2_membrane; cl11417 296591002461 BolA-like protein; Region: BolA; cl00386 296591002462 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 296591002463 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 296591002464 hinge; other site 296591002465 active site 296591002466 ATP phosphoribosyltransferase; Region: HisG; cl15266 296591002467 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 296591002468 histidinol dehydrogenase; Region: hisD; TIGR00069 296591002469 NAD binding site [chemical binding]; other site 296591002470 dimerization interface [polypeptide binding]; other site 296591002471 product binding site; other site 296591002472 substrate binding site [chemical binding]; other site 296591002473 zinc binding site [ion binding]; other site 296591002474 catalytic residues [active] 296591002475 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 296591002476 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 296591002477 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591002478 homodimer interface [polypeptide binding]; other site 296591002479 catalytic residue [active] 296591002480 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 296591002481 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 296591002482 putative active site pocket [active] 296591002483 4-fold oligomerization interface [polypeptide binding]; other site 296591002484 metal binding residues [ion binding]; metal-binding site 296591002485 3-fold/trimer interface [polypeptide binding]; other site 296591002486 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 296591002487 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 296591002488 putative active site [active] 296591002489 oxyanion strand; other site 296591002490 catalytic triad [active] 296591002491 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 296591002492 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 296591002493 catalytic residues [active] 296591002494 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 296591002495 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 296591002496 substrate binding site [chemical binding]; other site 296591002497 glutamase interaction surface [polypeptide binding]; other site 296591002498 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 296591002499 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 296591002500 Predicted membrane protein [Function unknown]; Region: COG3671 296591002501 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 296591002502 nucleotide binding site/active site [active] 296591002503 HIT family signature motif; other site 296591002504 catalytic residue [active] 296591002505 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 296591002506 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 296591002507 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 296591002508 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 296591002509 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 296591002510 protein binding site [polypeptide binding]; other site 296591002511 Uncharacterized conserved protein [Function unknown]; Region: COG0327 296591002512 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 296591002513 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 296591002514 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 296591002515 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 296591002516 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 296591002517 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 296591002518 [2Fe-2S] cluster binding site [ion binding]; other site 296591002519 cytochrome b; Provisional; Region: CYTB; MTH00145 296591002520 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 296591002521 Qi binding site; other site 296591002522 intrachain domain interface; other site 296591002523 interchain domain interface [polypeptide binding]; other site 296591002524 heme bH binding site [chemical binding]; other site 296591002525 heme bL binding site [chemical binding]; other site 296591002526 Qo binding site; other site 296591002527 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 296591002528 interchain domain interface [polypeptide binding]; other site 296591002529 intrachain domain interface; other site 296591002530 Qi binding site; other site 296591002531 Qo binding site; other site 296591002532 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 296591002533 stringent starvation protein A; Provisional; Region: sspA; PRK09481 296591002534 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 296591002535 C-terminal domain interface [polypeptide binding]; other site 296591002536 putative GSH binding site (G-site) [chemical binding]; other site 296591002537 dimer interface [polypeptide binding]; other site 296591002538 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 296591002539 dimer interface [polypeptide binding]; other site 296591002540 N-terminal domain interface [polypeptide binding]; other site 296591002541 Stringent starvation protein B; Region: SspB; cl01120 296591002542 Peptidase family M23; Region: Peptidase_M23; pfam01551 296591002543 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 296591002544 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 296591002545 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 296591002546 hypothetical protein; Provisional; Region: PRK02250 296591002547 SEC-C motif; Region: SEC-C; pfam02810 296591002548 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 296591002549 heterotetramer interface [polypeptide binding]; other site 296591002550 active site pocket [active] 296591002551 cleavage site 296591002552 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 296591002553 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 296591002554 Walker A motif; other site 296591002555 ATP binding site [chemical binding]; other site 296591002556 Walker B motif; other site 296591002557 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 296591002558 active site 296591002559 8-oxo-dGMP binding site [chemical binding]; other site 296591002560 nudix motif; other site 296591002561 metal binding site [ion binding]; metal-binding site 296591002562 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 296591002563 N-acetyl-D-glucosamine binding site [chemical binding]; other site 296591002564 catalytic residue [active] 296591002565 prolyl-tRNA synthetase; Provisional; Region: PRK09194 296591002566 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 296591002567 dimer interface [polypeptide binding]; other site 296591002568 motif 1; other site 296591002569 active site 296591002570 motif 2; other site 296591002571 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 296591002572 putative deacylase active site [active] 296591002573 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 296591002574 active site 296591002575 motif 3; other site 296591002576 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 296591002577 anticodon binding site; other site 296591002578 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 296591002579 putative active site [active] 296591002580 Ap4A binding site [chemical binding]; other site 296591002581 nudix motif; other site 296591002582 putative metal binding site [ion binding]; other site 296591002583 CNP1-like family; Region: CNP1; pfam08750 296591002584 gamma-glutamyl kinase; Provisional; Region: PRK05429 296591002585 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 296591002586 nucleotide binding site [chemical binding]; other site 296591002587 homotetrameric interface [polypeptide binding]; other site 296591002588 putative phosphate binding site [ion binding]; other site 296591002589 putative allosteric binding site; other site 296591002590 PUA domain; Region: PUA; cl00607 296591002591 GTPase CgtA; Reviewed; Region: obgE; PRK12299 296591002592 GTP1/OBG; Region: GTP1_OBG; pfam01018 296591002593 Obg GTPase; Region: Obg; cd01898 296591002594 G1 box; other site 296591002595 GTP/Mg2+ binding site [chemical binding]; other site 296591002596 Switch I region; other site 296591002597 G2 box; other site 296591002598 G3 box; other site 296591002599 Switch II region; other site 296591002600 G4 box; other site 296591002601 G5 box; other site 296591002602 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 296591002603 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 296591002604 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 296591002605 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 296591002606 substrate binding pocket [chemical binding]; other site 296591002607 chain length determination region; other site 296591002608 substrate-Mg2+ binding site; other site 296591002609 catalytic residues [active] 296591002610 aspartate-rich region 1; other site 296591002611 active site lid residues [active] 296591002612 aspartate-rich region 2; other site 296591002613 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 296591002614 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 296591002615 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 296591002616 Walker A motif; other site 296591002617 ATP binding site [chemical binding]; other site 296591002618 Walker B motif; other site 296591002619 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 296591002620 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 296591002621 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 296591002622 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 296591002623 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 296591002624 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 296591002625 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 296591002626 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 296591002627 CoA-binding site [chemical binding]; other site 296591002628 ATP-binding [chemical binding]; other site 296591002629 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 296591002630 Domain of unknown function (DUF329); Region: DUF329; cl01144 296591002631 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 296591002632 putative GSH binding site [chemical binding]; other site 296591002633 catalytic residues [active] 296591002634 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 296591002635 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591002636 peptide chain release factor 1; Validated; Region: prfA; PRK00591 296591002637 RF-1 domain; Region: RF-1; cl02875 296591002638 RF-1 domain; Region: RF-1; cl02875 296591002639 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 296591002640 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 296591002641 tRNA; other site 296591002642 putative tRNA binding site [nucleotide binding]; other site 296591002643 putative NADP binding site [chemical binding]; other site 296591002644 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 296591002645 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 296591002646 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 296591002647 active site 296591002648 catalytic site [active] 296591002649 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 296591002650 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 296591002651 Walker A/P-loop; other site 296591002652 ATP binding site [chemical binding]; other site 296591002653 Q-loop/lid; other site 296591002654 ABC transporter signature motif; other site 296591002655 Walker B; other site 296591002656 D-loop; other site 296591002657 H-loop/switch region; other site 296591002658 TOBE domain; Region: TOBE_2; cl01440 296591002659 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 296591002660 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 296591002661 dimer interface [polypeptide binding]; other site 296591002662 conserved gate region; other site 296591002663 putative PBP binding loops; other site 296591002664 ABC-ATPase subunit interface; other site 296591002665 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 296591002666 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 296591002667 dimer interface [polypeptide binding]; other site 296591002668 conserved gate region; other site 296591002669 putative PBP binding loops; other site 296591002670 ABC-ATPase subunit interface; other site 296591002671 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 296591002672 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 296591002673 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 296591002674 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 296591002675 FAD binding domain; Region: FAD_binding_4; pfam01565 296591002676 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 296591002677 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 296591002678 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 296591002679 Cysteine-rich domain; Region: CCG; pfam02754 296591002680 Cysteine-rich domain; Region: CCG; pfam02754 296591002681 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 296591002682 Protein of unknown function (DUF971); Region: DUF971; cl01414 296591002683 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 296591002684 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 296591002685 S-adenosylmethionine binding site [chemical binding]; other site 296591002686 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591002687 Tim44-like domain; Region: Tim44; cl09208 296591002688 SCP-2 sterol transfer family; Region: SCP2; cl01225 296591002689 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 296591002690 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591002691 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 296591002692 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 296591002693 Protein of unknown function (DUF502); Region: DUF502; cl01107 296591002694 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 296591002695 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 296591002696 dimer interface [polypeptide binding]; other site 296591002697 anticodon binding site; other site 296591002698 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 296591002699 homodimer interface [polypeptide binding]; other site 296591002700 motif 1; other site 296591002701 active site 296591002702 motif 2; other site 296591002703 GAD domain; Region: GAD; pfam02938 296591002704 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 296591002705 motif 3; other site 296591002706 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 296591002707 nudix motif; other site 296591002708 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 296591002709 putative active site [active] 296591002710 catalytic site [active] 296591002711 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 296591002712 PLD-like domain; Region: PLDc_2; pfam13091 296591002713 putative active site [active] 296591002714 catalytic site [active] 296591002715 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 296591002716 active site 296591002717 Sensors of blue-light using FAD; Region: BLUF; cl04855 296591002718 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 296591002719 Catalytic site; other site 296591002720 BON domain; Region: BON; cl02771 296591002721 BON domain; Region: BON; cl02771 296591002722 CHASE3 domain; Region: CHASE3; cl05000 296591002723 Histidine kinase; Region: HisKA_3; pfam07730 296591002724 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 296591002725 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 296591002726 ATP binding site [chemical binding]; other site 296591002727 Mg2+ binding site [ion binding]; other site 296591002728 G-X-G motif; other site 296591002729 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 296591002730 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 296591002731 active site 296591002732 phosphorylation site [posttranslational modification] 296591002733 intermolecular recognition site; other site 296591002734 dimerization interface [polypeptide binding]; other site 296591002735 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 296591002736 DNA binding residues [nucleotide binding] 296591002737 dimerization interface [polypeptide binding]; other site 296591002738 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 296591002739 Response regulator receiver domain; Region: Response_reg; pfam00072 296591002740 active site 296591002741 phosphorylation site [posttranslational modification] 296591002742 intermolecular recognition site; other site 296591002743 dimerization interface [polypeptide binding]; other site 296591002744 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 296591002745 AsmA-like C-terminal region; Region: AsmA_2; cl15864 296591002746 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 296591002747 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 296591002748 ATP binding site [chemical binding]; other site 296591002749 substrate interface [chemical binding]; other site 296591002750 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 296591002751 C-terminal peptidase (prc); Region: prc; TIGR00225 296591002752 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 296591002753 protein binding site [polypeptide binding]; other site 296591002754 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 296591002755 Catalytic dyad [active] 296591002756 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 296591002757 catalytic core [active] 296591002758 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 296591002759 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 296591002760 active site residue [active] 296591002761 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 296591002762 GSH binding site [chemical binding]; other site 296591002763 catalytic residues [active] 296591002764 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 296591002765 SecA binding site; other site 296591002766 Preprotein binding site; other site 296591002767 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 296591002768 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591002769 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 296591002770 Cupin domain; Region: Cupin_2; cl09118 296591002771 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 296591002772 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 296591002773 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 296591002774 pantoate--beta-alanine ligase; Region: panC; TIGR00018 296591002775 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 296591002776 active site 296591002777 nucleotide binding site [chemical binding]; other site 296591002778 HIGH motif; other site 296591002779 KMSKS motif; other site 296591002780 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 296591002781 oligomerization interface [polypeptide binding]; other site 296591002782 active site 296591002783 metal binding site [ion binding]; metal-binding site 296591002784 biotin synthase; Region: bioB; TIGR00433 296591002785 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 296591002786 FeS/SAM binding site; other site 296591002787 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 296591002788 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 296591002789 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 296591002790 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591002791 catalytic residue [active] 296591002792 AAA domain; Region: AAA_26; pfam13500 296591002793 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591002794 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 296591002795 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 296591002796 inhibitor-cofactor binding pocket; inhibition site 296591002797 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591002798 catalytic residue [active] 296591002799 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 296591002800 tetramerization interface [polypeptide binding]; other site 296591002801 active site 296591002802 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 296591002803 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 296591002804 dimerization interface [polypeptide binding]; other site 296591002805 active site 296591002806 Quinolinate synthetase A protein; Region: NadA; cl00420 296591002807 aminodeoxychorismate synthase; Provisional; Region: PRK07508 296591002808 chorismate binding enzyme; Region: Chorismate_bind; cl10555 296591002809 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 296591002810 substrate-cofactor binding pocket; other site 296591002811 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591002812 L-aspartate oxidase; Provisional; Region: PRK09077 296591002813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591002814 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 296591002815 ScpA/B protein; Region: ScpA_ScpB; cl00598 296591002816 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 296591002817 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 296591002818 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 296591002819 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; cl15754 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; cl15754 296591002821 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 296591002822 hydrogenase 4 subunit B; Validated; Region: PRK06521 296591002823 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 296591002824 NADH dehydrogenase; Region: NADHdh; cl00469 296591002825 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 296591002826 hydrogenase 4 subunit F; Validated; Region: PRK06458 296591002827 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 296591002828 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 296591002829 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 296591002830 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 296591002831 putative transporter; Provisional; Region: PRK11660 296591002832 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 296591002833 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 296591002834 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 296591002835 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 296591002836 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 296591002837 active site 296591002838 HIGH motif; other site 296591002839 KMSKS motif; other site 296591002840 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 296591002841 tRNA binding surface [nucleotide binding]; other site 296591002842 anticodon binding site; other site 296591002843 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 296591002844 dimer interface [polypeptide binding]; other site 296591002845 putative tRNA-binding site [nucleotide binding]; other site 296591002846 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 296591002847 Found in ATP-dependent protease La (LON); Region: LON; smart00464 296591002848 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 296591002849 Walker A motif; other site 296591002850 ATP binding site [chemical binding]; other site 296591002851 Walker B motif; other site 296591002852 arginine finger; other site 296591002853 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 296591002854 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4876 296591002855 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 296591002856 substrate binding site [chemical binding]; other site 296591002857 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 296591002858 putative FMN binding site [chemical binding]; other site 296591002859 NADPH bind site [chemical binding]; other site 296591002860 Domain of unknown function DUF59; Region: DUF59; cl00941 296591002861 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 296591002862 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 296591002863 Walker A motif; other site 296591002864 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 296591002865 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 296591002866 4Fe-4S binding domain; Region: Fer4; cl02805 296591002867 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 296591002868 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 296591002869 4Fe-4S binding domain; Region: Fer4; cl02805 296591002870 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 296591002871 4Fe-4S binding domain; Region: Fer4; cl02805 296591002872 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 296591002873 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 296591002874 [4Fe-4S] binding site [ion binding]; other site 296591002875 molybdopterin cofactor binding site; other site 296591002876 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 296591002877 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 296591002878 molybdopterin cofactor binding site; other site 296591002879 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 296591002880 4Fe-4S binding domain; Region: Fer4; cl02805 296591002881 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 296591002882 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 296591002883 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 296591002884 Peptidase C13 family; Region: Peptidase_C13; cl02159 296591002885 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 296591002886 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 296591002887 apolar tunnel; other site 296591002888 heme binding site [chemical binding]; other site 296591002889 dimerization interface [polypeptide binding]; other site 296591002890 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 296591002891 Smr domain; Region: Smr; cl02619 296591002892 hypothetical protein; Reviewed; Region: PRK00024 296591002893 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 296591002894 MPN+ (JAMM) motif; other site 296591002895 Zinc-binding site [ion binding]; other site 296591002896 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 296591002897 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 296591002898 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 296591002899 putative active site [active] 296591002900 putative NTP binding site [chemical binding]; other site 296591002901 putative nucleic acid binding site [nucleotide binding]; other site 296591002902 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 296591002903 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 296591002904 active site 296591002905 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 296591002906 LytB protein; Region: LYTB; cl00507 296591002907 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 296591002908 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 296591002909 serine racemase; Region: PLN02970 296591002910 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591002911 catalytic residue [active] 296591002912 seryl-tRNA synthetase; Provisional; Region: PRK05431 296591002913 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 296591002914 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 296591002915 dimer interface [polypeptide binding]; other site 296591002916 active site 296591002917 motif 1; other site 296591002918 motif 2; other site 296591002919 motif 3; other site 296591002920 Domain of unknown function (DUF955); Region: DUF955; cl01076 296591002921 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cl00046 296591002922 Phage capsid family; Region: Phage_capsid; pfam05065 296591002923 Phage terminase, small subunit; Region: Terminase_4; cl01525 296591002924 AAA domain; Region: AAA_25; pfam13481 296591002925 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591002926 Walker A motif; other site 296591002927 ATP binding site [chemical binding]; other site 296591002928 Walker B motif; other site 296591002929 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 296591002930 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 296591002931 active site 296591002932 Int/Topo IB signature motif; other site 296591002933 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 296591002934 Prephenate dehydratase; Region: PDT; pfam00800 296591002935 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 296591002936 putative L-Phe binding site [chemical binding]; other site 296591002937 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 296591002938 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 296591002939 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 296591002940 Domain of unknown function (DUF336); Region: DUF336; cl01249 296591002941 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591002942 NMT1-like family; Region: NMT1_2; cl15260 296591002943 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591002944 Helix-turn-helix domains; Region: HTH; cl00088 296591002945 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 296591002946 putative dimerization interface [polypeptide binding]; other site 296591002947 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 296591002948 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 296591002949 putative substrate translocation pore; other site 296591002950 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591002951 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 296591002952 putative substrate binding pocket [chemical binding]; other site 296591002953 putative dimerization interface [polypeptide binding]; other site 296591002954 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 296591002955 Helix-turn-helix domains; Region: HTH; cl00088 296591002956 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 296591002957 substrate binding pocket [chemical binding]; other site 296591002958 dimerization interface [polypeptide binding]; other site 296591002959 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 296591002960 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 296591002961 catalytic loop [active] 296591002962 iron binding site [ion binding]; other site 296591002963 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 296591002964 FAD binding pocket [chemical binding]; other site 296591002965 FAD binding motif [chemical binding]; other site 296591002966 phosphate binding motif [ion binding]; other site 296591002967 beta-alpha-beta structure motif; other site 296591002968 NAD binding pocket [chemical binding]; other site 296591002969 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 296591002970 Cupin domain; Region: Cupin_2; cl09118 296591002971 Cupin domain; Region: Cupin_2; cl09118 296591002972 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 296591002973 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 296591002974 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 296591002975 iron-sulfur cluster [ion binding]; other site 296591002976 [2Fe-2S] cluster binding site [ion binding]; other site 296591002977 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 296591002978 putative alpha subunit interface [polypeptide binding]; other site 296591002979 putative active site [active] 296591002980 putative substrate binding site [chemical binding]; other site 296591002981 Fe binding site [ion binding]; other site 296591002982 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 296591002983 inter-subunit interface; other site 296591002984 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 296591002985 [2Fe-2S] cluster binding site [ion binding]; other site 296591002986 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591002987 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 296591002988 putative ligand binding site [chemical binding]; other site 296591002989 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 296591002990 TM-ABC transporter signature motif; other site 296591002991 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 296591002992 TM-ABC transporter signature motif; other site 296591002993 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591002994 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 296591002995 Walker A/P-loop; other site 296591002996 ATP binding site [chemical binding]; other site 296591002997 Q-loop/lid; other site 296591002998 ABC transporter signature motif; other site 296591002999 Walker B; other site 296591003000 D-loop; other site 296591003001 H-loop/switch region; other site 296591003002 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591003003 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 296591003004 Walker A/P-loop; other site 296591003005 ATP binding site [chemical binding]; other site 296591003006 Q-loop/lid; other site 296591003007 ABC transporter signature motif; other site 296591003008 Walker B; other site 296591003009 D-loop; other site 296591003010 H-loop/switch region; other site 296591003011 maleylacetoacetate isomerase; Region: maiA; TIGR01262 296591003012 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 296591003013 C-terminal domain interface [polypeptide binding]; other site 296591003014 GSH binding site (G-site) [chemical binding]; other site 296591003015 putative dimer interface [polypeptide binding]; other site 296591003016 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 296591003017 dimer interface [polypeptide binding]; other site 296591003018 N-terminal domain interface [polypeptide binding]; other site 296591003019 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 296591003020 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591003021 Helix-turn-helix domains; Region: HTH; cl00088 296591003022 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 296591003023 iron-sulfur cluster [ion binding]; other site 296591003024 [2Fe-2S] cluster binding site [ion binding]; other site 296591003025 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 296591003026 alpha subunit interface [polypeptide binding]; other site 296591003027 active site 296591003028 substrate binding site [chemical binding]; other site 296591003029 Fe binding site [ion binding]; other site 296591003030 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591003031 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 296591003032 putative ligand binding site [chemical binding]; other site 296591003033 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 296591003034 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 296591003035 FMN-binding pocket [chemical binding]; other site 296591003036 flavin binding motif; other site 296591003037 phosphate binding motif [ion binding]; other site 296591003038 beta-alpha-beta structure motif; other site 296591003039 NAD binding pocket [chemical binding]; other site 296591003040 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 296591003041 catalytic loop [active] 296591003042 iron binding site [ion binding]; other site 296591003043 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 296591003044 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 296591003045 non-specific DNA binding site [nucleotide binding]; other site 296591003046 salt bridge; other site 296591003047 sequence-specific DNA binding site [nucleotide binding]; other site 296591003048 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 296591003049 Catalytic site [active] 296591003050 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 296591003051 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 296591003052 dimer interface [polypeptide binding]; other site 296591003053 phosphorylation site [posttranslational modification] 296591003054 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 296591003055 ATP binding site [chemical binding]; other site 296591003056 G-X-G motif; other site 296591003057 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 296591003058 active site 296591003059 phosphorylation site [posttranslational modification] 296591003060 intermolecular recognition site; other site 296591003061 dimerization interface [polypeptide binding]; other site 296591003062 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 296591003063 DNA binding residues [nucleotide binding] 296591003064 dimerization interface [polypeptide binding]; other site 296591003065 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 296591003066 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 296591003067 active site 296591003068 HIGH motif; other site 296591003069 dimer interface [polypeptide binding]; other site 296591003070 KMSKS motif; other site 296591003071 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 296591003072 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 296591003073 active site 296591003074 putative substrate binding region [chemical binding]; other site 296591003075 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 296591003076 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 296591003077 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 296591003078 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 296591003079 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591003080 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591003081 DNA-binding site [nucleotide binding]; DNA binding site 296591003082 FCD domain; Region: FCD; cl11656 296591003083 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 296591003084 dimer interface [polypeptide binding]; other site 296591003085 conserved gate region; other site 296591003086 ABC-ATPase subunit interface; other site 296591003087 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 296591003088 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 296591003089 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 296591003090 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 296591003091 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591003092 Walker A/P-loop; other site 296591003093 ATP binding site [chemical binding]; other site 296591003094 Q-loop/lid; other site 296591003095 ABC transporter signature motif; other site 296591003096 Walker B; other site 296591003097 D-loop; other site 296591003098 H-loop/switch region; other site 296591003099 TOBE domain; Region: TOBE_2; cl01440 296591003100 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 296591003101 DHH family; Region: DHH; pfam01368 296591003102 DHHA1 domain; Region: DHHA1; pfam02272 296591003103 Sulfatase; Region: Sulfatase; cl10460 296591003104 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 296591003105 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 296591003106 FtsX-like permease family; Region: FtsX; cl15850 296591003107 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 296591003108 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 296591003109 Walker A/P-loop; other site 296591003110 ATP binding site [chemical binding]; other site 296591003111 Q-loop/lid; other site 296591003112 ABC transporter signature motif; other site 296591003113 Walker B; other site 296591003114 D-loop; other site 296591003115 H-loop/switch region; other site 296591003116 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). The cleavage...; Region: Peptidase_C39_like; cl00296 296591003117 putative active site [active] 296591003118 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 296591003119 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 296591003120 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591003121 Walker A/P-loop; other site 296591003122 ATP binding site [chemical binding]; other site 296591003123 Q-loop/lid; other site 296591003124 ABC transporter signature motif; other site 296591003125 Walker B; other site 296591003126 D-loop; other site 296591003127 H-loop/switch region; other site 296591003128 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 296591003129 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 296591003130 RTX toxin acyltransferase family; Region: HlyC; cl01131 296591003131 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 296591003132 active site 296591003133 substrate binding pocket [chemical binding]; other site 296591003134 dimer interface [polypeptide binding]; other site 296591003135 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 296591003136 putative metal binding site [ion binding]; other site 296591003137 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 296591003138 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 296591003139 FAD binding domain; Region: FAD_binding_4; pfam01565 296591003140 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591003141 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 296591003142 ligand binding site [chemical binding]; other site 296591003143 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 296591003144 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 296591003145 tetramer interface [polypeptide binding]; other site 296591003146 active site 296591003147 Mg2+/Mn2+ binding site [ion binding]; other site 296591003148 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591003149 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591003150 DNA-binding site [nucleotide binding]; DNA binding site 296591003151 FCD domain; Region: FCD; cl11656 296591003152 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 296591003153 Peptidase family M48; Region: Peptidase_M48; cl12018 296591003154 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 296591003155 putative RNA binding sites [nucleotide binding]; other site 296591003156 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 296591003157 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, 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...; Region: Met_dep_hydrolase_E; cd01313 296591003158 active site 296591003159 imidazolonepropionase; Validated; Region: PRK09356 296591003160 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 296591003161 active site 296591003162 HutD; Region: HutD; cl01532 296591003163 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 296591003164 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 296591003165 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 296591003166 Walker A/P-loop; other site 296591003167 ATP binding site [chemical binding]; other site 296591003168 Q-loop/lid; other site 296591003169 ABC transporter signature motif; other site 296591003170 Walker B; other site 296591003171 D-loop; other site 296591003172 H-loop/switch region; other site 296591003173 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 296591003174 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 296591003175 dimer interface [polypeptide binding]; other site 296591003176 conserved gate region; other site 296591003177 putative PBP binding loops; other site 296591003178 ABC-ATPase subunit interface; other site 296591003179 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 296591003180 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591003181 substrate binding pocket [chemical binding]; other site 296591003182 membrane-bound complex binding site; other site 296591003183 hinge residues; other site 296591003184 Transcriptional regulator [Transcription]; Region: IclR; COG1414 296591003185 Helix-turn-helix domains; Region: HTH; cl00088 296591003186 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591003187 urocanate hydratase; Provisional; Region: PRK05414 296591003188 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 296591003189 active sites [active] 296591003190 tetramer interface [polypeptide binding]; other site 296591003191 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 296591003192 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591003193 DNA-binding site [nucleotide binding]; DNA binding site 296591003194 UTRA domain; Region: UTRA; cl01230 296591003195 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 296591003196 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 296591003197 Walker A/P-loop; other site 296591003198 ATP binding site [chemical binding]; other site 296591003199 Q-loop/lid; other site 296591003200 ABC transporter signature motif; other site 296591003201 Walker B; other site 296591003202 D-loop; other site 296591003203 H-loop/switch region; other site 296591003204 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 296591003205 dimer interface [polypeptide binding]; other site 296591003206 conserved gate region; other site 296591003207 putative PBP binding loops; other site 296591003208 ABC-ATPase subunit interface; other site 296591003209 NMT1-like family; Region: NMT1_2; cl15260 296591003210 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 296591003211 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 296591003212 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591003213 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 296591003214 substrate binding pocket [chemical binding]; other site 296591003215 membrane-bound complex binding site; other site 296591003216 hinge residues; other site 296591003217 Flavin Reductases; Region: FlaRed; cl00801 296591003218 Transcriptional regulators [Transcription]; Region: FadR; COG2186 296591003219 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591003220 DNA-binding site [nucleotide binding]; DNA binding site 296591003221 FCD domain; Region: FCD; cl11656 296591003222 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 296591003223 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 296591003224 putative active site [active] 296591003225 putative catalytic site [active] 296591003226 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 296591003227 nudix motif; other site 296591003228 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 296591003229 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591003230 NMT1-like family; Region: NMT1_2; cl15260 296591003231 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 296591003232 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 296591003233 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 296591003234 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 296591003235 GAF domain; Region: GAF; cl15785 296591003236 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 296591003237 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 296591003238 DNA binding site [nucleotide binding] 296591003239 Int/Topo IB signature motif; other site 296591003240 active site 296591003241 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 296591003242 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 296591003243 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 296591003244 metal binding site [ion binding]; metal-binding site 296591003245 active site 296591003246 I-site; other site 296591003247 PUA domain; Region: PUA; cl00607 296591003248 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 296591003249 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 296591003250 S-adenosylmethionine binding site [chemical binding]; other site 296591003251 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 296591003252 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 296591003253 P-loop, Walker A motif; other site 296591003254 Base recognition motif; other site 296591003255 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 296591003256 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 296591003257 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 296591003258 cell division protein MraZ; Reviewed; Region: PRK00326 296591003259 MraZ protein; Region: MraZ; pfam02381 296591003260 MraZ protein; Region: MraZ; pfam02381 296591003261 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 296591003262 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591003263 Septum formation initiator; Region: DivIC; cl11433 296591003264 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 296591003265 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 296591003266 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 296591003267 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 296591003268 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 296591003269 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 296591003270 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 296591003271 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 296591003272 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 296591003273 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 296591003274 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 296591003275 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 296591003276 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 296591003277 Mg++ binding site [ion binding]; other site 296591003278 putative catalytic motif [active] 296591003279 putative substrate binding site [chemical binding]; other site 296591003280 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 296591003281 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 296591003282 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK00683 296591003283 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 296591003284 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 296591003285 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 296591003286 active site 296591003287 homodimer interface [polypeptide binding]; other site 296591003288 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 296591003289 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 296591003290 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 296591003291 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 296591003292 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 296591003293 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 296591003294 ATP-grasp domain; Region: ATP-grasp_4; cl03087 296591003295 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 296591003296 Cell division protein FtsQ; Region: FtsQ; pfam03799 296591003297 cell division protein FtsA; Region: ftsA; TIGR01174 296591003298 Cell division protein FtsA; Region: FtsA; cl11496 296591003299 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 296591003300 ATP binding site [chemical binding]; other site 296591003301 profilin binding site; other site 296591003302 cell division protein FtsZ; Validated; Region: PRK09330 296591003303 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 296591003304 nucleotide binding site [chemical binding]; other site 296591003305 SulA interaction site; other site 296591003306 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 296591003307 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 296591003308 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 296591003309 active site 296591003310 putative DNA-binding cleft [nucleotide binding]; other site 296591003311 dimer interface [polypeptide binding]; other site 296591003312 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 296591003313 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 296591003314 putative acyl-acceptor binding pocket; other site 296591003315 Transglycosylase; Region: Transgly; cl07896 296591003316 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 296591003317 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 296591003318 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 296591003319 shikimate binding site; other site 296591003320 NAD(P) binding site [chemical binding]; other site 296591003321 Gram-negative bacterial tonB protein; Region: TonB; cl10048 296591003322 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 296591003323 RNB domain; Region: RNB; pfam00773 296591003324 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 296591003325 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591003326 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 296591003327 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 296591003328 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 296591003329 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 296591003330 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 296591003331 NeuB family; Region: NeuB; cl00496 296591003332 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 296591003333 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 296591003334 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 296591003335 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 296591003336 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 296591003337 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 296591003338 catalytic residues [active] 296591003339 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 296591003340 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 296591003341 carboxyltransferase (CT) interaction site; other site 296591003342 biotinylation site [posttranslational modification]; other site 296591003343 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 296591003344 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 296591003345 ATP-grasp domain; Region: ATP-grasp_4; cl03087 296591003346 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 296591003347 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 296591003348 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591003349 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591003350 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 296591003351 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 296591003352 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 296591003353 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 296591003354 substrate binding site [chemical binding]; other site 296591003355 ATP binding site [chemical binding]; other site 296591003356 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 296591003357 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 296591003358 dimer interface [polypeptide binding]; other site 296591003359 putative radical transfer pathway; other site 296591003360 diiron center [ion binding]; other site 296591003361 tyrosyl radical; other site 296591003362 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 296591003363 ATP cone domain; Region: ATP-cone; pfam03477 296591003364 Class I ribonucleotide reductase; Region: RNR_I; cd01679 296591003365 active site 296591003366 dimer interface [polypeptide binding]; other site 296591003367 catalytic residues [active] 296591003368 effector binding site; other site 296591003369 R2 peptide binding site; other site 296591003370 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 296591003371 amidase catalytic site [active] 296591003372 Zn binding residues [ion binding]; other site 296591003373 substrate binding site [chemical binding]; other site 296591003374 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 296591003375 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 296591003376 active site 296591003377 phosphorylation site [posttranslational modification] 296591003378 intermolecular recognition site; other site 296591003379 dimerization interface [polypeptide binding]; other site 296591003380 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 296591003381 Walker A motif; other site 296591003382 ATP binding site [chemical binding]; other site 296591003383 Walker B motif; other site 296591003384 arginine finger; other site 296591003385 Helix-turn-helix domains; Region: HTH; cl00088 296591003386 sensory histidine kinase AtoS; Provisional; Region: PRK11360 296591003387 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 296591003388 dimer interface [polypeptide binding]; other site 296591003389 phosphorylation site [posttranslational modification] 296591003390 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 296591003391 ATP binding site [chemical binding]; other site 296591003392 Mg2+ binding site [ion binding]; other site 296591003393 G-X-G motif; other site 296591003394 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 296591003395 signal recognition particle protein; Provisional; Region: PRK10867 296591003396 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 296591003397 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 296591003398 GTP binding site [chemical binding]; other site 296591003399 Signal peptide binding domain; Region: SRP_SPB; pfam02978 296591003400 Membrane glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: MdoH; COG2943 296591003401 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 296591003402 Ligand binding site; other site 296591003403 DXD motif; other site 296591003404 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 296591003405 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 296591003406 response regulator GlrR; Provisional; Region: PRK15115 296591003407 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 296591003408 active site 296591003409 phosphorylation site [posttranslational modification] 296591003410 intermolecular recognition site; other site 296591003411 dimerization interface [polypeptide binding]; other site 296591003412 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 296591003413 Walker A motif; other site 296591003414 ATP binding site [chemical binding]; other site 296591003415 Walker B motif; other site 296591003416 arginine finger; other site 296591003417 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 296591003418 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 296591003419 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 296591003420 dimer interface [polypeptide binding]; other site 296591003421 phosphorylation site [posttranslational modification] 296591003422 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 296591003423 ATP binding site [chemical binding]; other site 296591003424 Mg2+ binding site [ion binding]; other site 296591003425 G-X-G motif; other site 296591003426 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 296591003427 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 296591003428 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 296591003429 FeS/SAM binding site; other site 296591003430 TRAM domain; Region: TRAM; cl01282 296591003431 enoyl-CoA hydratase; Provisional; Region: PRK05862 296591003432 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 296591003433 substrate binding site [chemical binding]; other site 296591003434 oxyanion hole (OAH) forming residues; other site 296591003435 trimer interface [polypeptide binding]; other site 296591003436 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 296591003437 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 296591003438 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 296591003439 protein binding site [polypeptide binding]; other site 296591003440 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 296591003441 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 296591003442 dimerization domain [polypeptide binding]; other site 296591003443 dimer interface [polypeptide binding]; other site 296591003444 catalytic residues [active] 296591003445 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591003446 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 296591003447 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 296591003448 MOSC domain; Region: MOSC; pfam03473 296591003449 GTP-binding protein YchF; Reviewed; Region: PRK09601 296591003450 YchF GTPase; Region: YchF; cd01900 296591003451 G1 box; other site 296591003452 GTP/Mg2+ binding site [chemical binding]; other site 296591003453 Switch I region; other site 296591003454 G2 box; other site 296591003455 Switch II region; other site 296591003456 G3 box; other site 296591003457 G4 box; other site 296591003458 G5 box; other site 296591003459 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 296591003460 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 296591003461 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 296591003462 RNA binding surface [nucleotide binding]; other site 296591003463 PSSA_1: Pseudouridine synthase, a subgroup of the RsuA family. This group is comprised of bacterial proteins assigned to the RsuA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PSSA_1; cd02555 296591003464 active site 296591003465 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 296591003466 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 296591003467 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 296591003468 FMN binding site [chemical binding]; other site 296591003469 active site 296591003470 catalytic residues [active] 296591003471 substrate binding site [chemical binding]; other site 296591003472 Helix-turn-helix domains; Region: HTH; cl00088 296591003473 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 296591003474 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 296591003475 purine monophosphate binding site [chemical binding]; other site 296591003476 dimer interface [polypeptide binding]; other site 296591003477 putative catalytic residues [active] 296591003478 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 296591003479 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 296591003480 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 296591003481 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 296591003482 inhibitor-cofactor binding pocket; inhibition site 296591003483 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591003484 catalytic residue [active] 296591003485 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 296591003486 substrate binding site [chemical binding]; other site 296591003487 ATP binding site [chemical binding]; other site 296591003488 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 296591003489 Rubredoxin; Region: Rubredoxin; pfam00301 296591003490 iron binding site [ion binding]; other site 296591003491 Response regulator receiver domain; Region: Response_reg; pfam00072 296591003492 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 296591003493 active site 296591003494 phosphorylation site [posttranslational modification] 296591003495 intermolecular recognition site; other site 296591003496 dimerization interface [polypeptide binding]; other site 296591003497 Response regulator receiver domain; Region: Response_reg; pfam00072 296591003498 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 296591003499 active site 296591003500 phosphorylation site [posttranslational modification] 296591003501 intermolecular recognition site; other site 296591003502 dimerization interface [polypeptide binding]; other site 296591003503 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 296591003504 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 296591003505 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 296591003506 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 296591003507 dimer interface [polypeptide binding]; other site 296591003508 putative CheW interface [polypeptide binding]; other site 296591003509 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 296591003510 putative binding surface; other site 296591003511 active site 296591003512 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 296591003513 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 296591003514 putative binding surface; other site 296591003515 active site 296591003516 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 296591003517 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 296591003518 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 296591003519 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 296591003520 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 296591003521 Response regulator receiver domain; Region: Response_reg; pfam00072 296591003522 active site 296591003523 phosphorylation site [posttranslational modification] 296591003524 intermolecular recognition site; other site 296591003525 dimerization interface [polypeptide binding]; other site 296591003526 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 296591003527 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 296591003528 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 296591003529 active site 296591003530 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 296591003531 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 296591003532 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591003533 dihydroorotase; Provisional; Region: PRK07627 296591003534 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 296591003535 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 296591003536 active site 296591003537 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 296591003538 putative acyl-acceptor binding pocket; other site 296591003539 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 296591003540 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 296591003541 Walker A/P-loop; other site 296591003542 ATP binding site [chemical binding]; other site 296591003543 Q-loop/lid; other site 296591003544 ABC transporter signature motif; other site 296591003545 Walker B; other site 296591003546 D-loop; other site 296591003547 H-loop/switch region; other site 296591003548 TOBE domain; Region: TOBE_2; cl01440 296591003549 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 296591003550 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 296591003551 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 296591003552 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 296591003553 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 296591003554 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 296591003555 Helix-turn-helix domains; Region: HTH; cl00088 296591003556 CsbD-like; Region: CsbD; cl15799 296591003557 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 296591003558 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 296591003559 Walker A/P-loop; other site 296591003560 ATP binding site [chemical binding]; other site 296591003561 Q-loop/lid; other site 296591003562 ABC transporter signature motif; other site 296591003563 Walker B; other site 296591003564 D-loop; other site 296591003565 H-loop/switch region; other site 296591003566 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 296591003567 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 296591003568 dimer interface [polypeptide binding]; other site 296591003569 conserved gate region; other site 296591003570 ABC-ATPase subunit interface; other site 296591003571 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 296591003572 active sites [active] 296591003573 tetramer interface [polypeptide binding]; other site 296591003574 NMT1-like family; Region: NMT1_2; cl15260 296591003575 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 296591003576 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 296591003577 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 296591003578 active sites [active] 296591003579 tetramer interface [polypeptide binding]; other site 296591003580 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591003581 NMT1-like family; Region: NMT1_2; cl15260 296591003582 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 296591003583 NMT1-like family; Region: NMT1_2; cl15260 296591003584 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 296591003585 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591003586 urocanate hydratase; Provisional; Region: PRK05414 296591003587 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 296591003588 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591003589 DNA-binding site [nucleotide binding]; DNA binding site 296591003590 UTRA domain; Region: UTRA; cl01230 296591003591 N-formylglutamate amidohydrolase; Region: FGase; cl01522 296591003592 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 296591003593 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 296591003594 active site 296591003595 phosphorylation site [posttranslational modification] 296591003596 intermolecular recognition site; other site 296591003597 dimerization interface [polypeptide binding]; other site 296591003598 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 296591003599 DNA binding residues [nucleotide binding] 296591003600 dimerization interface [polypeptide binding]; other site 296591003601 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 296591003602 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 296591003603 Ligand Binding Site [chemical binding]; other site 296591003604 Response regulator receiver domain; Region: Response_reg; pfam00072 296591003605 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 296591003606 active site 296591003607 phosphorylation site [posttranslational modification] 296591003608 intermolecular recognition site; other site 296591003609 dimerization interface [polypeptide binding]; other site 296591003610 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 296591003611 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 296591003612 ligand binding site [chemical binding]; other site 296591003613 flexible hinge region; other site 296591003614 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 296591003615 putative switch regulator; other site 296591003616 non-specific DNA interactions [nucleotide binding]; other site 296591003617 DNA binding site [nucleotide binding] 296591003618 sequence specific DNA binding site [nucleotide binding]; other site 296591003619 putative cAMP binding site [chemical binding]; other site 296591003620 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 296591003621 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 296591003622 HSP70 interaction site [polypeptide binding]; other site 296591003623 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 296591003624 substrate binding site [polypeptide binding]; other site 296591003625 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 296591003626 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 296591003627 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 296591003628 Phospholipid methyltransferase; Region: PEMT; cl00763 296591003629 Short C-terminal domain; Region: SHOCT; cl01373 296591003630 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 296591003631 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 296591003632 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 296591003633 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 296591003634 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 296591003635 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 296591003636 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 296591003637 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 296591003638 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 296591003639 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 296591003640 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 296591003641 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 296591003642 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 296591003643 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 296591003644 FtsX-like permease family; Region: FtsX; cl15850 296591003645 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 296591003646 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 296591003647 Walker A/P-loop; other site 296591003648 ATP binding site [chemical binding]; other site 296591003649 Q-loop/lid; other site 296591003650 ABC transporter signature motif; other site 296591003651 Walker B; other site 296591003652 D-loop; other site 296591003653 H-loop/switch region; other site 296591003654 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 296591003655 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 296591003656 Cysteine-rich domain; Region: CCG; pfam02754 296591003657 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 296591003658 putative dimer interface [polypeptide binding]; other site 296591003659 putative active site [active] 296591003660 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 296591003661 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 296591003662 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 296591003663 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 296591003664 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 296591003665 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 296591003666 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 296591003667 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 296591003668 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 296591003669 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 296591003670 active site 296591003671 thymidine phosphorylase; Provisional; Region: PRK04350 296591003672 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 296591003673 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 296591003674 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 296591003675 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 296591003676 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591003677 AAA domain; Region: AAA_33; pfam13671 296591003678 active site 296591003679 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 296591003680 Ligand Binding Site [chemical binding]; other site 296591003681 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 296591003682 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 296591003683 NAD(P) binding site [chemical binding]; other site 296591003684 homotetramer interface [polypeptide binding]; other site 296591003685 homodimer interface [polypeptide binding]; other site 296591003686 active site 296591003687 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 296591003688 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 296591003689 BON domain; Region: BON; cl02771 296591003690 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 296591003691 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_2; TIGR02822 296591003692 putative NAD(P) binding site [chemical binding]; other site 296591003693 putative substrate binding site [chemical binding]; other site 296591003694 catalytic Zn binding site [ion binding]; other site 296591003695 structural Zn binding site [ion binding]; other site 296591003696 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 296591003697 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 296591003698 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 296591003699 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 296591003700 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 296591003701 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591003702 CoA-ligase; Region: Ligase_CoA; cl02894 296591003703 ATP-grasp domain; Region: ATP-grasp_4; cl03087 296591003704 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 296591003705 Ligand Binding Site [chemical binding]; other site 296591003706 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 296591003707 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 296591003708 ligand binding site [chemical binding]; other site 296591003709 flexible hinge region; other site 296591003710 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 296591003711 putative switch regulator; other site 296591003712 non-specific DNA interactions [nucleotide binding]; other site 296591003713 DNA binding site [nucleotide binding] 296591003714 sequence specific DNA binding site [nucleotide binding]; other site 296591003715 putative cAMP binding site [chemical binding]; other site 296591003716 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 296591003717 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 296591003718 FeS/SAM binding site; other site 296591003719 HemN C-terminal domain; Region: HemN_C; pfam06969 296591003720 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 296591003721 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 296591003722 Beta-Casp domain; Region: Beta-Casp; cl12567 296591003723 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 296591003724 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 296591003725 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 296591003726 Transposase; Region: DEDD_Tnp_IS110; pfam01548 296591003727 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 296591003728 RNA polymerase factor sigma-70; Validated; Region: PRK08241 296591003729 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 296591003730 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 296591003731 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 296591003732 putative substrate translocation pore; other site 296591003733 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 296591003734 Family of unknown function (DUF490); Region: DUF490; pfam04357 296591003735 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 296591003736 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 296591003737 Surface antigen; Region: Bac_surface_Ag; cl03097 296591003738 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 296591003739 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 296591003740 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 296591003741 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 296591003742 Walker A motif; other site 296591003743 ATP binding site [chemical binding]; other site 296591003744 Walker B motif; other site 296591003745 arginine finger; other site 296591003746 Cytochrome c; Region: Cytochrom_C; cl11414 296591003747 Cytochrome c; Region: Cytochrom_C; cl11414 296591003748 putative transposase OrfB; Reviewed; Region: PHA02517 296591003749 Integrase core domain; Region: rve; cl01316 296591003750 Integrase core domain; Region: rve_3; cl15866 296591003751 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 296591003752 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 296591003753 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 296591003754 Helix-turn-helix domains; Region: HTH; cl00088 296591003755 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591003756 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 296591003757 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 296591003758 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 296591003759 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 296591003760 dimer interface [polypeptide binding]; other site 296591003761 active site 296591003762 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591003763 NMT1-like family; Region: NMT1_2; cl15260 296591003764 NMT1-like family; Region: NMT1_2; cl15260 296591003765 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 296591003766 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 296591003767 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591003768 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 296591003769 active site 296591003770 ATP binding site [chemical binding]; other site 296591003771 substrate binding site [chemical binding]; other site 296591003772 activation loop (A-loop); other site 296591003773 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 296591003774 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 296591003775 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 296591003776 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591003777 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 296591003778 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 296591003779 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 296591003780 P-loop; other site 296591003781 Magnesium ion binding site [ion binding]; other site 296591003782 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 296591003783 putative active site [active] 296591003784 putative catalytic site [active] 296591003785 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 296591003786 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 296591003787 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 296591003788 active site 296591003789 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 296591003790 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591003791 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 296591003792 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 296591003793 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 296591003794 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 296591003795 Cytochrome c; Region: Cytochrom_C; cl11414 296591003796 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 296591003797 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 296591003798 Subunit I/III interface [polypeptide binding]; other site 296591003799 D-pathway; other site 296591003800 Subunit I/VIIc interface [polypeptide binding]; other site 296591003801 Subunit I/IV interface [polypeptide binding]; other site 296591003802 Subunit I/II interface [polypeptide binding]; other site 296591003803 Low-spin heme (heme a) binding site [chemical binding]; other site 296591003804 Subunit I/VIIa interface [polypeptide binding]; other site 296591003805 Subunit I/VIa interface [polypeptide binding]; other site 296591003806 Dimer interface; other site 296591003807 Putative water exit pathway; other site 296591003808 Binuclear center (heme a3/CuB) [ion binding]; other site 296591003809 K-pathway; other site 296591003810 Subunit I/Vb interface [polypeptide binding]; other site 296591003811 Putative proton exit pathway; other site 296591003812 Subunit I/VIb interface; other site 296591003813 Subunit I/VIc interface [polypeptide binding]; other site 296591003814 Electron transfer pathway; other site 296591003815 Subunit I/VIIIb interface [polypeptide binding]; other site 296591003816 Subunit I/VIIb interface [polypeptide binding]; other site 296591003817 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 296591003818 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 296591003819 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 296591003820 Subunit III/VIIa interface [polypeptide binding]; other site 296591003821 Phospholipid binding site [chemical binding]; other site 296591003822 Subunit I/III interface [polypeptide binding]; other site 296591003823 Subunit III/VIb interface [polypeptide binding]; other site 296591003824 Subunit III/VIa interface; other site 296591003825 Subunit III/Vb interface [polypeptide binding]; other site 296591003826 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 296591003827 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 296591003828 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 296591003829 UbiA prenyltransferase family; Region: UbiA; cl00337 296591003830 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 296591003831 Cu(I) binding site [ion binding]; other site 296591003832 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 296591003833 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 296591003834 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 296591003835 DNA binding residues [nucleotide binding] 296591003836 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 296591003837 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 296591003838 Walker A/P-loop; other site 296591003839 ATP binding site [chemical binding]; other site 296591003840 Q-loop/lid; other site 296591003841 ABC transporter signature motif; other site 296591003842 Walker B; other site 296591003843 D-loop; other site 296591003844 H-loop/switch region; other site 296591003845 TOBE domain; Region: TOBE_2; cl01440 296591003846 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 296591003847 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 296591003848 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 296591003849 dimer interface [polypeptide binding]; other site 296591003850 conserved gate region; other site 296591003851 putative PBP binding loops; other site 296591003852 ABC-ATPase subunit interface; other site 296591003853 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 296591003854 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 296591003855 dimer interface [polypeptide binding]; other site 296591003856 conserved gate region; other site 296591003857 putative PBP binding loops; other site 296591003858 ABC-ATPase subunit interface; other site 296591003859 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 296591003860 Cu(I) binding site [ion binding]; other site 296591003861 Cytochrome c; Region: Cytochrom_C; cl11414 296591003862 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 296591003863 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 296591003864 Low-spin heme binding site [chemical binding]; other site 296591003865 Putative water exit pathway; other site 296591003866 Binuclear center (active site) [active] 296591003867 Putative proton exit pathway; other site 296591003868 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 296591003869 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591003870 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 296591003871 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591003872 NMT1-like family; Region: NMT1_2; cl15260 296591003873 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 296591003874 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591003875 DNA-binding site [nucleotide binding]; DNA binding site 296591003876 FCD domain; Region: FCD; cl11656 296591003877 Protein of unknown function (DUF962); Region: DUF962; cl01879 296591003878 GYD domain; Region: GYD; cl01743 296591003879 LysE type translocator; Region: LysE; cl00565 296591003880 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 296591003881 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 296591003882 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591003883 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 296591003884 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 296591003885 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 296591003886 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 296591003887 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 296591003888 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 296591003889 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 296591003890 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 296591003891 S-adenosylmethionine binding site [chemical binding]; other site 296591003892 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 296591003893 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 296591003894 active site 296591003895 (T/H)XGH motif; other site 296591003896 hypothetical protein; Provisional; Region: PRK13795 296591003897 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591003898 DNA-binding site [nucleotide binding]; DNA binding site 296591003899 FCD domain; Region: FCD; cl11656 296591003900 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 296591003901 uncharacterized xylulose kinase-like proteins, subgroup 1; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 296591003902 N- and C-terminal domain interface [polypeptide binding]; other site 296591003903 putative active site [active] 296591003904 catalytic site [active] 296591003905 metal binding site [ion binding]; metal-binding site 296591003906 putative xylulose binding site [chemical binding]; other site 296591003907 putative ATP binding site [chemical binding]; other site 296591003908 putative homodimer interface [polypeptide binding]; other site 296591003909 L-iditol 2-dehydrogenase; Region: iditol_2_DH_like; cd08235 296591003910 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 296591003911 putative NAD(P) binding site [chemical binding]; other site 296591003912 catalytic Zn binding site [ion binding]; other site 296591003913 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 296591003914 putative active site; other site 296591003915 catalytic residue [active] 296591003916 DctM-like transporters; Region: DctM; pfam06808 296591003917 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 296591003918 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 296591003919 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591003920 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591003921 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 296591003922 putative active site [active] 296591003923 catalytic residue [active] 296591003924 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 296591003925 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 296591003926 5S rRNA interface [nucleotide binding]; other site 296591003927 CTC domain interface [polypeptide binding]; other site 296591003928 L16 interface [polypeptide binding]; other site 296591003929 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 296591003930 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 296591003931 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 296591003932 active site 296591003933 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 296591003934 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 296591003935 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 296591003936 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 296591003937 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 296591003938 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 296591003939 binding surface 296591003940 TPR motif; other site 296591003941 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 296591003942 N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: FpgNei_N; cl03119 296591003943 DNA binding site [nucleotide binding] 296591003944 catalytic residue [active] 296591003945 H2TH interface [polypeptide binding]; other site 296591003946 putative catalytic residues [active] 296591003947 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 296591003948 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 296591003949 Dynamin family; Region: Dynamin_N; pfam00350 296591003950 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591003951 G1 box; other site 296591003952 GTP/Mg2+ binding site [chemical binding]; other site 296591003953 G2 box; other site 296591003954 Switch I region; other site 296591003955 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591003956 G3 box; other site 296591003957 Switch II region; other site 296591003958 GTP/Mg2+ binding site [chemical binding]; other site 296591003959 G4 box; other site 296591003960 G5 box; other site 296591003961 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 296591003962 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 296591003963 minor groove reading motif; other site 296591003964 helix-hairpin-helix signature motif; other site 296591003965 substrate binding pocket [chemical binding]; other site 296591003966 active site 296591003967 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 296591003968 DNA binding and oxoG recognition site [nucleotide binding] 296591003969 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 296591003970 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 296591003971 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 296591003972 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 296591003973 Walker A/P-loop; other site 296591003974 ATP binding site [chemical binding]; other site 296591003975 Q-loop/lid; other site 296591003976 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 296591003977 ABC transporter signature motif; other site 296591003978 Walker B; other site 296591003979 D-loop; other site 296591003980 H-loop/switch region; other site 296591003981 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 296591003982 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 296591003983 Helix-turn-helix domains; Region: HTH; cl00088 296591003984 HrcA protein C terminal domain; Region: HrcA; pfam01628 296591003985 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 296591003986 polymerase nucleotide-binding site; other site 296591003987 DNA-binding residues [nucleotide binding]; DNA binding site 296591003988 nucleotide binding site [chemical binding]; other site 296591003989 primase nucleotide-binding site [nucleotide binding]; other site 296591003990 D5 N terminal like; Region: D5_N; cl07360 296591003991 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 296591003992 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 296591003993 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 296591003994 DNA binding site [nucleotide binding] 296591003995 Int/Topo IB signature motif; other site 296591003996 active site 296591003997 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 296591003998 general secretion pathway protein H; Region: typeII_sec_gspH; TIGR01708 296591003999 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 296591004000 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 296591004001 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 296591004002 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 296591004003 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 296591004004 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 296591004005 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 296591004006 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 296591004007 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 296591004008 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 296591004009 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 296591004010 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 296591004011 Walker A motif; other site 296591004012 ATP binding site [chemical binding]; other site 296591004013 Walker B motif; other site 296591004014 general secretion pathway protein F; Region: GspF; TIGR02120 296591004015 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 296591004016 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 296591004017 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 296591004018 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 296591004019 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 296591004020 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 296591004021 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 296591004022 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 296591004023 synthetase active site [active] 296591004024 NTP binding site [chemical binding]; other site 296591004025 metal binding site [ion binding]; metal-binding site 296591004026 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 296591004027 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 296591004028 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 296591004029 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 296591004030 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 296591004031 catalytic site [active] 296591004032 G-X2-G-X-G-K; other site 296591004033 hypothetical protein; Provisional; Region: PRK11820 296591004034 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 296591004035 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 296591004036 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 296591004037 Catalytic domain of Protein Kinases; Region: PKc; cd00180 296591004038 active site 296591004039 ATP binding site [chemical binding]; other site 296591004040 substrate binding site [chemical binding]; other site 296591004041 activation loop (A-loop); other site 296591004042 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 296591004043 Protein phosphatase 2C; Region: PP2C; pfam00481 296591004044 active site 296591004045 ribonuclease PH; Reviewed; Region: rph; PRK00173 296591004046 Ribonuclease PH; Region: RNase_PH_bact; cd11362 296591004047 hexamer interface [polypeptide binding]; other site 296591004048 active site 296591004049 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 296591004050 active site 296591004051 dimerization interface [polypeptide binding]; other site 296591004052 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 296591004053 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 296591004054 FeS/SAM binding site; other site 296591004055 HemN C-terminal domain; Region: HemN_C; pfam06969 296591004056 Potato inhibitor I family; Region: potato_inhibit; cl15459 296591004057 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591004058 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 296591004059 UreF; Region: UreF; pfam01730 296591004060 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 296591004061 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 296591004062 dimer interface [polypeptide binding]; other site 296591004063 catalytic residues [active] 296591004064 urease subunit alpha; Reviewed; Region: ureC; PRK13207 296591004065 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 296591004066 subunit interactions [polypeptide binding]; other site 296591004067 active site 296591004068 flap region; other site 296591004069 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 296591004070 gamma-beta subunit interface [polypeptide binding]; other site 296591004071 alpha-beta subunit interface [polypeptide binding]; other site 296591004072 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 296591004073 alpha-gamma subunit interface [polypeptide binding]; other site 296591004074 beta-gamma subunit interface [polypeptide binding]; other site 296591004075 Sodium:solute symporter family; Region: SSF; cl00456 296591004076 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 296591004077 dimer interface [polypeptide binding]; other site 296591004078 phosphorylation site [posttranslational modification] 296591004079 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 296591004080 ATP binding site [chemical binding]; other site 296591004081 Mg2+ binding site [ion binding]; other site 296591004082 G-X-G motif; other site 296591004083 Response regulator receiver domain; Region: Response_reg; pfam00072 296591004084 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 296591004085 active site 296591004086 phosphorylation site [posttranslational modification] 296591004087 intermolecular recognition site; other site 296591004088 dimerization interface [polypeptide binding]; other site 296591004089 Response regulator receiver domain; Region: Response_reg; pfam00072 296591004090 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 296591004091 active site 296591004092 phosphorylation site [posttranslational modification] 296591004093 intermolecular recognition site; other site 296591004094 dimerization interface [polypeptide binding]; other site 296591004095 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 296591004096 DNA binding residues [nucleotide binding] 296591004097 dimerization interface [polypeptide binding]; other site 296591004098 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 296591004099 rRNA binding site [nucleotide binding]; other site 296591004100 predicted 30S ribosome binding site; other site 296591004101 Protein of unknown function (DUF502); Region: DUF502; cl01107 296591004102 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 296591004103 DEAD_2; Region: DEAD_2; pfam06733 296591004104 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591004105 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 296591004106 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 296591004107 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 296591004108 active site residue [active] 296591004109 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 296591004110 EF-hand domain pair; Region: EF_hand_5; pfam13499 296591004111 Ca2+ binding site [ion binding]; other site 296591004112 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 296591004113 putative catalytic site [active] 296591004114 putative metal binding site [ion binding]; other site 296591004115 putative phosphate binding site [ion binding]; other site 296591004116 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 296591004117 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 296591004118 dimerization interface [polypeptide binding]; other site 296591004119 putative DNA binding site [nucleotide binding]; other site 296591004120 putative Zn2+ binding site [ion binding]; other site 296591004121 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 296591004122 putative hydrophobic ligand binding site [chemical binding]; other site 296591004123 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591004124 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 296591004125 active site 296591004126 metal binding site [ion binding]; metal-binding site 296591004127 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 296591004128 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 296591004129 sensor protein ZraS; Provisional; Region: PRK10364 296591004130 Response regulator receiver domain; Region: Response_reg; pfam00072 296591004131 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 296591004132 active site 296591004133 phosphorylation site [posttranslational modification] 296591004134 intermolecular recognition site; other site 296591004135 dimerization interface [polypeptide binding]; other site 296591004136 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 296591004137 intersubunit interface [polypeptide binding]; other site 296591004138 active site 296591004139 Zn2+ binding site [ion binding]; other site 296591004140 SlyX; Region: SlyX; cl01090 296591004141 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 296591004142 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 296591004143 DNA binding residues [nucleotide binding] 296591004144 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 296591004145 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 296591004146 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 296591004147 C-terminal domain interface [polypeptide binding]; other site 296591004148 GSH binding site (G-site) [chemical binding]; other site 296591004149 dimer interface [polypeptide binding]; other site 296591004150 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 296591004151 dimer interface [polypeptide binding]; other site 296591004152 N-terminal domain interface [polypeptide binding]; other site 296591004153 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 296591004154 active site residue [active] 296591004155 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 296591004156 active site residue [active] 296591004157 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 296591004158 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 296591004159 DNA binding residues [nucleotide binding] 296591004160 dimerization interface [polypeptide binding]; other site 296591004161 Low molecular weight phosphatase family; Region: LMWPc; cl00105 296591004162 active site 296591004163 Protein of unknown function (DUF419); Region: DUF419; cl15265 296591004164 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591004165 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591004166 Transposase; Region: DEDD_Tnp_IS110; pfam01548 296591004167 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 296591004168 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591004169 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 296591004170 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591004171 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 296591004172 Amidase; Region: Amidase; cl11426 296591004173 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 296591004174 dimer interface [polypeptide binding]; other site 296591004175 ABC-ATPase subunit interface; other site 296591004176 putative PBP binding loops; other site 296591004177 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 296591004178 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 296591004179 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 296591004180 Walker A/P-loop; other site 296591004181 ATP binding site [chemical binding]; other site 296591004182 Q-loop/lid; other site 296591004183 ABC transporter signature motif; other site 296591004184 Walker B; other site 296591004185 D-loop; other site 296591004186 H-loop/switch region; other site 296591004187 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 296591004188 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591004189 substrate binding pocket [chemical binding]; other site 296591004190 membrane-bound complex binding site; other site 296591004191 hinge residues; other site 296591004192 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 296591004193 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 296591004194 conserved cys residue [active] 296591004195 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 296591004196 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591004197 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 296591004198 putative ligand binding site [chemical binding]; other site 296591004199 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 296591004200 TM-ABC transporter signature motif; other site 296591004201 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 296591004202 TM-ABC transporter signature motif; other site 296591004203 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 296591004204 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 296591004205 Walker A/P-loop; other site 296591004206 ATP binding site [chemical binding]; other site 296591004207 Q-loop/lid; other site 296591004208 ABC transporter signature motif; other site 296591004209 Walker B; other site 296591004210 D-loop; other site 296591004211 H-loop/switch region; other site 296591004212 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 296591004213 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 296591004214 Walker A/P-loop; other site 296591004215 ATP binding site [chemical binding]; other site 296591004216 Q-loop/lid; other site 296591004217 ABC transporter signature motif; other site 296591004218 Walker B; other site 296591004219 D-loop; other site 296591004220 H-loop/switch region; other site 296591004221 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 296591004222 dimer interface [polypeptide binding]; other site 296591004223 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 296591004224 Ferritin-like domain; Region: Ferritin; pfam00210 296591004225 dinuclear metal binding motif [ion binding]; other site 296591004226 Cupin domain; Region: Cupin_2; cl09118 296591004227 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 296591004228 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 296591004229 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 296591004230 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591004231 Uncharacterized conserved protein [Function unknown]; Region: COG3268 296591004232 NAD(P) binding site [chemical binding]; other site 296591004233 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591004234 Helix-turn-helix domains; Region: HTH; cl00088 296591004235 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 296591004236 TOMM system kinase/cyclase multidomain protein; Region: TOMM_kin_cyc; TIGR03903 296591004237 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591004238 TOMM system kinase/cyclase multidomain protein; Region: TOMM_kin_cyc; TIGR03903 296591004239 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 296591004240 FAD binding domain; Region: FAD_binding_4; pfam01565 296591004241 Berberine and berberine like; Region: BBE; pfam08031 296591004242 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 296591004243 Predicted metal-binding integral membrane protein [Function unknown]; Region: COG5486 296591004244 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 296591004245 aminotransferase; Validated; Region: PRK08175 296591004246 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 296591004247 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591004248 homodimer interface [polypeptide binding]; other site 296591004249 catalytic residue [active] 296591004250 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 296591004251 UreD urease accessory protein; Region: UreD; cl00530 296591004252 cyanophycin synthetase; Provisional; Region: PRK14016 296591004253 ATP-grasp domain; Region: ATP-grasp_4; cl03087 296591004254 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 296591004255 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 296591004256 cyanophycin synthetase; Provisional; Region: PRK14016 296591004257 ATP-grasp domain; Region: ATP-grasp_4; cl03087 296591004258 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 296591004259 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 296591004260 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 296591004261 Walker A/P-loop; other site 296591004262 ATP binding site [chemical binding]; other site 296591004263 Q-loop/lid; other site 296591004264 ABC transporter signature motif; other site 296591004265 Walker B; other site 296591004266 D-loop; other site 296591004267 H-loop/switch region; other site 296591004268 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 296591004269 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591004270 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591004271 DNA-binding site [nucleotide binding]; DNA binding site 296591004272 FCD domain; Region: FCD; cl11656 296591004273 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 296591004274 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 296591004275 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 296591004276 Malic enzyme, N-terminal domain; Region: malic; pfam00390 296591004277 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 296591004278 putative NAD(P) binding site [chemical binding]; other site 296591004279 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 296591004280 M20 Zn-peptidases include exopeptidases; Region: M20_like; cd02697 296591004281 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 296591004282 putative metal binding site [ion binding]; other site 296591004283 putative bifunctional OHCU decarboxylase/allantoate amidohydrolase; Provisional; Region: PRK13590 296591004284 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 296591004285 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 296591004286 active site 296591004287 metal binding site [ion binding]; metal-binding site 296591004288 dimer interface [polypeptide binding]; other site 296591004289 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 296591004290 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 296591004291 active site 296591004292 catalytic site [active] 296591004293 tetramer interface [polypeptide binding]; other site 296591004294 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 296591004295 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591004296 DNA-binding site [nucleotide binding]; DNA binding site 296591004297 FCD domain; Region: FCD; cl11656 296591004298 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 296591004299 active site 296591004300 homotetramer interface [polypeptide binding]; other site 296591004301 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591004302 NMT1-like family; Region: NMT1_2; cl15260 296591004303 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 296591004304 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 296591004305 XdhC Rossmann domain; Region: XdhC_C; pfam13478 296591004306 Predicted membrane protein [Function unknown]; Region: COG3748 296591004307 Protein of unknown function (DUF989); Region: DUF989; pfam06181 296591004308 Cytochrome c; Region: Cytochrom_C; cl11414 296591004309 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 296591004310 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 296591004311 putative ligand binding site [chemical binding]; other site 296591004312 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 296591004313 tartrate dehydrogenase; Provisional; Region: PRK08194 296591004314 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591004315 NMT1-like family; Region: NMT1_2; cl15260 296591004316 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 296591004317 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 296591004318 MOFRL family; Region: MOFRL; pfam05161 296591004319 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591004320 FAD dependent oxidoreductase; Region: DAO; pfam01266 296591004321 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 296591004322 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 296591004323 Walker A/P-loop; other site 296591004324 ATP binding site [chemical binding]; other site 296591004325 Q-loop/lid; other site 296591004326 ABC transporter signature motif; other site 296591004327 Walker B; other site 296591004328 D-loop; other site 296591004329 H-loop/switch region; other site 296591004330 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 296591004331 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 296591004332 dimer interface [polypeptide binding]; other site 296591004333 conserved gate region; other site 296591004334 putative PBP binding loops; other site 296591004335 ABC-ATPase subunit interface; other site 296591004336 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 296591004337 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591004338 substrate binding pocket [chemical binding]; other site 296591004339 membrane-bound complex binding site; other site 296591004340 hinge residues; other site 296591004341 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 296591004342 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 296591004343 non-specific DNA binding site [nucleotide binding]; other site 296591004344 salt bridge; other site 296591004345 sequence-specific DNA binding site [nucleotide binding]; other site 296591004346 Cupin domain; Region: Cupin_2; cl09118 296591004347 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 296591004348 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 296591004349 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 296591004350 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 296591004351 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 296591004352 Walker A/P-loop; other site 296591004353 ATP binding site [chemical binding]; other site 296591004354 Q-loop/lid; other site 296591004355 ABC transporter signature motif; other site 296591004356 Walker B; other site 296591004357 D-loop; other site 296591004358 H-loop/switch region; other site 296591004359 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591004360 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 296591004361 Walker A/P-loop; other site 296591004362 ATP binding site [chemical binding]; other site 296591004363 Q-loop/lid; other site 296591004364 ABC transporter signature motif; other site 296591004365 Walker B; other site 296591004366 D-loop; other site 296591004367 H-loop/switch region; other site 296591004368 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591004369 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 296591004370 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 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 dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 296591004377 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 296591004378 dimer interface [polypeptide binding]; other site 296591004379 conserved gate region; other site 296591004380 putative PBP binding loops; other site 296591004381 ABC-ATPase subunit interface; other site 296591004382 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 296591004383 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591004384 Helix-turn-helix domains; Region: HTH; cl00088 296591004385 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 296591004386 dimerization interface [polypeptide binding]; other site 296591004387 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591004388 NMT1-like family; Region: NMT1_2; cl15260 296591004389 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 296591004390 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 296591004391 active site 296591004392 phosphorylation site [posttranslational modification] 296591004393 intermolecular recognition site; other site 296591004394 dimerization interface [polypeptide binding]; other site 296591004395 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 296591004396 DNA binding site [nucleotide binding] 296591004397 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 296591004398 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 296591004399 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 296591004400 dimer interface [polypeptide binding]; other site 296591004401 phosphorylation site [posttranslational modification] 296591004402 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 296591004403 ATP binding site [chemical binding]; other site 296591004404 Mg2+ binding site [ion binding]; other site 296591004405 G-X-G motif; other site 296591004406 NMT1-like family; Region: NMT1_2; cl15260 296591004407 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 296591004408 Helix-turn-helix domains; Region: HTH; cl00088 296591004409 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 296591004410 dimerization interface [polypeptide binding]; other site 296591004411 substrate binding pocket [chemical binding]; other site 296591004412 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591004413 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591004414 NAD(P) binding site [chemical binding]; other site 296591004415 active site 296591004416 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591004417 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591004418 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 296591004419 DctM-like transporters; Region: DctM; pfam06808 296591004420 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 296591004421 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 296591004422 dihydroxyacetone kinase; Provisional; Region: PRK14479 296591004423 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 296591004424 DAK2 domain; Region: Dak2; cl03685 296591004425 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 296591004426 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 296591004427 TPP-binding site [chemical binding]; other site 296591004428 dimer interface [polypeptide binding]; other site 296591004429 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 296591004430 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 296591004431 PYR/PP interface [polypeptide binding]; other site 296591004432 dimer interface [polypeptide binding]; other site 296591004433 TPP binding site [chemical binding]; other site 296591004434 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 296591004435 Phospholipid methyltransferase; Region: PEMT; cl00763 296591004436 Glycerophosphodiester phosphodiesterase domain of putative Silicibacter pomeroyi glycerophosphodiester phosphodiesterase and similar proteins; Region: GDPD_SpGDE_like; cd08567 296591004437 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 296591004438 active site 296591004439 catalytic site [active] 296591004440 metal binding site [ion binding]; metal-binding site 296591004441 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 296591004442 Amidase; Region: Amidase; cl11426 296591004443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591004444 NMT1-like family; Region: NMT1_2; cl15260 296591004445 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 296591004446 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 296591004447 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591004448 catalytic residue [active] 296591004449 FAD dependent oxidoreductase; Region: DAO; pfam01266 296591004450 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591004451 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 296591004452 non-specific DNA binding site [nucleotide binding]; other site 296591004453 salt bridge; other site 296591004454 sequence-specific DNA binding site [nucleotide binding]; other site 296591004455 Cupin domain; Region: Cupin_2; cl09118 296591004456 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 296591004457 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 296591004458 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 296591004459 Walker A motif; other site 296591004460 ATP binding site [chemical binding]; other site 296591004461 Walker B motif; other site 296591004462 arginine finger; other site 296591004463 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 296591004464 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 296591004465 hypothetical protein; Reviewed; Region: PRK09588 296591004466 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 296591004467 RNA 3' phosphate cyclase domain (class II). These proteins function as RNA cyclase to catalyze the ATP-dependent conversion of 3'-phosphate to a 2'.3'-cyclic phosphodiester at the end of RNA molecule. A conserved catalytic histidine residue is found in...; Region: RNA_Cyclase_Class_II; cd00874 296591004468 putative active site [active] 296591004469 adenylation catalytic residue [active] 296591004470 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 296591004471 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 296591004472 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 296591004473 Catalytic domain of bacterial PuuE allantoinases, Helicobacter pylori peptidoglycan deacetylase (HpPgdA), and similar proteins; Region: CE4_PuuE_HpPgdA_like; cd10916 296591004474 active site 296591004475 catalytic site [active] 296591004476 tetramer interface [polypeptide binding]; other site 296591004477 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591004478 NMT1-like family; Region: NMT1_2; cl15260 296591004479 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 296591004480 Helix-turn-helix domains; Region: HTH; cl00088 296591004481 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 296591004482 dimerization interface [polypeptide binding]; other site 296591004483 substrate binding pocket [chemical binding]; other site 296591004484 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 296591004485 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 296591004486 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 296591004487 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 296591004488 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 296591004489 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 296591004490 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 296591004491 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591004492 Helix-turn-helix domains; Region: HTH; cl00088 296591004493 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 296591004494 dimerization interface [polypeptide binding]; other site 296591004495 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 296591004496 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 296591004497 Walker A/P-loop; other site 296591004498 ATP binding site [chemical binding]; other site 296591004499 Q-loop/lid; other site 296591004500 ABC transporter signature motif; other site 296591004501 Walker B; other site 296591004502 D-loop; other site 296591004503 H-loop/switch region; other site 296591004504 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 296591004505 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 296591004506 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 296591004507 TM-ABC transporter signature motif; other site 296591004508 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 296591004509 TM-ABC transporter signature motif; other site 296591004510 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 296591004511 putative ligand binding site [chemical binding]; other site 296591004512 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 296591004513 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 296591004514 active site 296591004515 purine riboside binding site [chemical binding]; other site 296591004516 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 296591004517 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 296591004518 Helix-turn-helix domains; Region: HTH; cl00088 296591004519 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 296591004520 putative dimerization interface [polypeptide binding]; other site 296591004521 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 296591004522 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591004523 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591004524 NAD(P) binding site [chemical binding]; other site 296591004525 active site 296591004526 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 296591004527 Major Facilitator Superfamily; Region: MFS_1; pfam07690 296591004528 putative substrate translocation pore; other site 296591004529 L-rhamnonate dehydratase; Provisional; Region: PRK15440 296591004530 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 296591004531 putative active site pocket [active] 296591004532 putative metal binding site [ion binding]; other site 296591004533 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 296591004534 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 296591004535 FeS/SAM binding site; other site 296591004536 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 296591004537 active site 296591004538 guanine deaminase; Provisional; Region: PRK09228 296591004539 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 296591004540 active site 296591004541 Predicted amidohydrolase [General function prediction only]; Region: COG0388 296591004542 N-carbamyl-D-amino acid amidohydrolase (DCase, class 6 nitrilases); Region: DCase; cd07569 296591004543 tetramer interface [polypeptide binding]; other site 296591004544 active site 296591004545 catalytic triad [active] 296591004546 dimer interface [polypeptide binding]; other site 296591004547 allantoate amidohydrolase; Reviewed; Region: PRK12893 296591004548 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 296591004549 active site 296591004550 metal binding site [ion binding]; metal-binding site 296591004551 dimer interface [polypeptide binding]; other site 296591004552 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 296591004553 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591004554 catalytic residue [active] 296591004555 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 296591004556 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 296591004557 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 296591004558 putative active site [active] 296591004559 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 296591004560 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591004561 substrate binding pocket [chemical binding]; other site 296591004562 membrane-bound complex binding site; other site 296591004563 hinge residues; other site 296591004564 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 296591004565 dimer interface [polypeptide binding]; other site 296591004566 conserved gate region; other site 296591004567 putative PBP binding loops; other site 296591004568 ABC-ATPase subunit interface; other site 296591004569 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 296591004570 dimer interface [polypeptide binding]; other site 296591004571 conserved gate region; other site 296591004572 putative PBP binding loops; other site 296591004573 ABC-ATPase subunit interface; other site 296591004574 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 296591004575 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 296591004576 Walker A/P-loop; other site 296591004577 ATP binding site [chemical binding]; other site 296591004578 Q-loop/lid; other site 296591004579 ABC transporter signature motif; other site 296591004580 Walker B; other site 296591004581 D-loop; other site 296591004582 H-loop/switch region; other site 296591004583 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 296591004584 trimer interface [polypeptide binding]; other site 296591004585 active site 296591004586 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 296591004587 FAD binding domain; Region: FAD_binding_4; pfam01565 296591004588 Berberine and berberine like; Region: BBE; pfam08031 296591004589 GYD domain; Region: GYD; cl01743 296591004590 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; cl15754 296591004591 mercuric reductase; Validated; Region: PRK06370 296591004592 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591004593 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591004594 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 296591004595 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 296591004596 putative substrate binding pocket [chemical binding]; other site 296591004597 AC domain interface; other site 296591004598 catalytic triad [active] 296591004599 AB domain interface; other site 296591004600 interchain disulfide; other site 296591004601 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 296591004602 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 296591004603 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 296591004604 helicase 45; Provisional; Region: PTZ00424 296591004605 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 296591004606 ATP binding site [chemical binding]; other site 296591004607 Mg++ binding site [ion binding]; other site 296591004608 motif III; other site 296591004609 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 296591004610 nucleotide binding region [chemical binding]; other site 296591004611 ATP-binding site [chemical binding]; other site 296591004612 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 296591004613 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 296591004614 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 296591004615 active site 296591004616 metal binding site [ion binding]; metal-binding site 296591004617 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 296591004618 Domain of unknown function DUF21; Region: DUF21; pfam01595 296591004619 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 296591004620 Transporter associated domain; Region: CorC_HlyC; cl08393 296591004621 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 296591004622 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 296591004623 DNA binding site [nucleotide binding] 296591004624 Int/Topo IB signature motif; other site 296591004625 active site 296591004626 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 296591004627 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 296591004628 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 296591004629 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 296591004630 active site 296591004631 NTP binding site [chemical binding]; other site 296591004632 metal binding triad [ion binding]; metal-binding site 296591004633 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 296591004634 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; cl03005 296591004635 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 296591004636 non-specific DNA binding site [nucleotide binding]; other site 296591004637 salt bridge; other site 296591004638 sequence-specific DNA binding site [nucleotide binding]; other site 296591004639 Domain of unknown function (DUF955); Region: DUF955; cl01076 296591004640 ATPase; Provisional; Region: PRK13764 296591004641 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 296591004642 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 296591004643 Walker A motif; other site 296591004644 ATP binding site [chemical binding]; other site 296591004645 Walker B motif; other site 296591004646 arginine finger; other site 296591004647 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 296591004648 Walker A motif; other site 296591004649 ATP binding site [chemical binding]; other site 296591004650 Walker B motif; other site 296591004651 arginine finger; other site 296591004652 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 296591004653 IHF - DNA interface [nucleotide binding]; other site 296591004654 IHF dimer interface [polypeptide binding]; other site 296591004655 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 296591004656 Int/Topo IB signature motif; other site 296591004657 active site 296591004658 DNA binding site [nucleotide binding] 296591004659 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 296591004660 AAA domain; Region: AAA_21; pfam13304 296591004661 RloB-like protein; Region: RloB; pfam13707 296591004662 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 296591004663 Fic/DOC family; Region: Fic; cl00960 296591004664 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 296591004665 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 296591004666 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 296591004667 HipA N-terminal domain; Region: Couple_hipA; cl11853 296591004668 HipA-like N-terminal domain; Region: HipA_N; pfam07805 296591004669 HipA-like C-terminal domain; Region: HipA_C; pfam07804 296591004670 RloB-like protein; Region: RloB; pfam13707 296591004671 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 296591004672 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09775 296591004673 HipA N-terminal domain; Region: Couple_hipA; cl11853 296591004674 HipA-like N-terminal domain; Region: HipA_N; pfam07805 296591004675 HipA-like C-terminal domain; Region: HipA_C; pfam07804 296591004676 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 296591004677 Integrase core domain; Region: rve; cl01316 296591004678 NMT1-like family; Region: NMT1_2; cl15260 296591004679 beta-ketothiolase; Provisional; Region: PRK09051 296591004680 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 296591004681 dimer interface [polypeptide binding]; other site 296591004682 active site 296591004683 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 296591004684 tetramerization interface [polypeptide binding]; other site 296591004685 active site 296591004686 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 296591004687 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 296591004688 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591004689 catalytic residue [active] 296591004690 biotin synthase; Region: bioB; TIGR00433 296591004691 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 296591004692 FeS/SAM binding site; other site 296591004693 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 296591004694 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 296591004695 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; cl01381 296591004696 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 296591004697 Putative transposase; Region: Y2_Tnp; pfam04986 296591004698 integron integrase; Region: integrase_gron; TIGR02249 296591004699 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 296591004700 DNA binding site [nucleotide binding] 296591004701 Int/Topo IB signature motif; other site 296591004702 active site 296591004703 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 296591004704 AMP binding site [chemical binding]; other site 296591004705 metal binding site [ion binding]; metal-binding site 296591004706 active site 296591004707 aminopeptidase N; Provisional; Region: pepN; PRK14015 296591004708 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 296591004709 active site 296591004710 Zn binding site [ion binding]; other site 296591004711 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591004712 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591004713 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 296591004714 AMP-binding enzyme; Region: AMP-binding; cl15778 296591004715 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591004716 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 296591004717 ligand binding site [chemical binding]; other site 296591004718 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 296591004719 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 296591004720 active site 296591004721 catalytic tetrad [active] 296591004722 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 296591004723 putative deacylase active site [active] 296591004724 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 296591004725 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 296591004726 catalytic motif [active] 296591004727 Catalytic residue [active] 296591004728 Protein of unknown function (DUF520); Region: DUF520; cl00723 296591004729 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 296591004730 FAD binding domain; Region: FAD_binding_4; pfam01565 296591004731 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 296591004732 Uncharacterized conserved protein [Function unknown]; Region: COG4278 296591004733 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 296591004734 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 296591004735 Ligand Binding Site [chemical binding]; other site 296591004736 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 296591004737 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 296591004738 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 296591004739 ArsC family; Region: ArsC; pfam03960 296591004740 putative catalytic residues [active] 296591004741 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 296591004742 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 296591004743 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 296591004744 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 296591004745 C2 domain; Region: C2; cl14603 296591004746 Sporulation related domain; Region: SPOR; cl10051 296591004747 Colicin V production protein; Region: Colicin_V; cl00567 296591004748 amidophosphoribosyltransferase; Provisional; Region: PRK09246 296591004749 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 296591004750 active site 296591004751 tetramer interface [polypeptide binding]; other site 296591004752 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 296591004753 active site 296591004754 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 296591004755 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 296591004756 homodimer interface [polypeptide binding]; other site 296591004757 substrate-cofactor binding pocket; other site 296591004758 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591004759 catalytic residue [active] 296591004760 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 296591004761 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 296591004762 active site 296591004763 HIGH motif; other site 296591004764 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 296591004765 active site 296591004766 KMSKS motif; other site 296591004767 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 296591004768 Creatinine amidohydrolase; Region: Creatininase; cl00618 296591004769 Uncharacterized conserved protein [Function unknown]; Region: COG3391 296591004770 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 296591004771 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 296591004772 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591004773 Helix-turn-helix domains; Region: HTH; cl00088 296591004774 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 296591004775 dimerization interface [polypeptide binding]; other site 296591004776 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 296591004777 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591004778 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 296591004779 putative ligand binding site [chemical binding]; other site 296591004780 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591004781 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 296591004782 Walker A/P-loop; other site 296591004783 ATP binding site [chemical binding]; other site 296591004784 Q-loop/lid; other site 296591004785 ABC transporter signature motif; other site 296591004786 Walker B; other site 296591004787 D-loop; other site 296591004788 H-loop/switch region; other site 296591004789 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591004790 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 296591004791 Walker A/P-loop; other site 296591004792 ATP binding site [chemical binding]; other site 296591004793 Q-loop/lid; other site 296591004794 ABC transporter signature motif; other site 296591004795 Walker B; other site 296591004796 D-loop; other site 296591004797 H-loop/switch region; other site 296591004798 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 296591004799 TM-ABC transporter signature motif; other site 296591004800 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 296591004801 TM-ABC transporter signature motif; other site 296591004802 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591004803 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 296591004804 putative ligand binding site [chemical binding]; other site 296591004805 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591004806 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591004807 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 296591004808 AMP-binding enzyme; Region: AMP-binding; cl15778 296591004809 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591004810 aldehyde dehydrogenase; Provisional; Region: PRK11903 296591004811 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 296591004812 NAD(P) binding site [chemical binding]; other site 296591004813 catalytic residues [active] 296591004814 anaerobic benzoate catabolism transcriptional regulator; Reviewed; Region: PRK08154 296591004815 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 296591004816 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 296591004817 ADP binding site [chemical binding]; other site 296591004818 magnesium binding site [ion binding]; other site 296591004819 putative shikimate binding site; other site 296591004820 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 296591004821 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 296591004822 substrate binding site [chemical binding]; other site 296591004823 oxyanion hole (OAH) forming residues; other site 296591004824 trimer interface [polypeptide binding]; other site 296591004825 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 296591004826 substrate binding site [chemical binding]; other site 296591004827 trimer interface [polypeptide binding]; other site 296591004828 oxyanion hole (OAH) forming residues; other site 296591004829 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 296591004830 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 296591004831 4Fe-4S binding domain; Region: Fer4; cl02805 296591004832 4Fe-4S binding domain; Region: Fer4; cl02805 296591004833 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 296591004834 dimerization interface [polypeptide binding]; other site 296591004835 FAD binding pocket [chemical binding]; other site 296591004836 FAD binding motif [chemical binding]; other site 296591004837 catalytic residues [active] 296591004838 NAD binding pocket [chemical binding]; other site 296591004839 phosphate binding motif [ion binding]; other site 296591004840 beta-alpha-beta structure motif; other site 296591004841 enoyl-CoA hydratase; Provisional; Region: PRK05995 296591004842 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 296591004843 substrate binding site [chemical binding]; other site 296591004844 oxyanion hole (OAH) forming residues; other site 296591004845 trimer interface [polypeptide binding]; other site 296591004846 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 296591004847 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591004848 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 296591004849 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 296591004850 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 296591004851 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 296591004852 substrate binding site [chemical binding]; other site 296591004853 oxyanion hole (OAH) forming residues; other site 296591004854 trimer interface [polypeptide binding]; other site 296591004855 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 296591004856 Ubiquitin-like proteins; Region: UBQ; cl00155 296591004857 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 296591004858 Protein of unknown function DUF82; Region: DUF82; pfam01927 296591004859 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 296591004860 EamA-like transporter family; Region: EamA; cl01037 296591004861 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 296591004862 EamA-like transporter family; Region: EamA; cl01037 296591004863 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 296591004864 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 296591004865 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 296591004866 DNA binding site [nucleotide binding] 296591004867 active site 296591004868 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 296591004869 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 296591004870 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 296591004871 AlkA N-terminal domain; Region: AlkA_N; cl05528 296591004872 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 296591004873 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 296591004874 minor groove reading motif; other site 296591004875 helix-hairpin-helix signature motif; other site 296591004876 substrate binding pocket [chemical binding]; other site 296591004877 active site 296591004878 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 296591004879 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 296591004880 active site 296591004881 substrate binding site [chemical binding]; other site 296591004882 metal binding site [ion binding]; metal-binding site 296591004883 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 296591004884 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 296591004885 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 296591004886 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 296591004887 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 296591004888 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 296591004889 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 296591004890 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 296591004891 putative dimer interface [polypeptide binding]; other site 296591004892 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591004893 Domain of unknown function (DUF1772); Region: DUF1772; cl12097 296591004894 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 296591004895 proposed catalytic triad [active] 296591004896 active site nucleophile [active] 296591004897 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 296591004898 putative hydrophobic ligand binding site [chemical binding]; other site 296591004899 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 296591004900 metal coordination site [ion binding]; other site 296591004901 Cysteine dioxygenase type I; Region: CDO_I; cl15835 296591004902 Predicted metal-binding integral membrane protein [Function unknown]; Region: COG5486 296591004903 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 296591004904 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 296591004905 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 296591004906 active site 296591004907 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 296591004908 Cupin domain; Region: Cupin_2; cl09118 296591004909 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 296591004910 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 296591004911 active site residue [active] 296591004912 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 296591004913 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 296591004914 S-adenosylmethionine binding site [chemical binding]; other site 296591004915 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 296591004916 Protein export membrane protein; Region: SecD_SecF; cl14618 296591004917 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 296591004918 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 296591004919 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 296591004920 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591004921 Helix-turn-helix domains; Region: HTH; cl00088 296591004922 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 296591004923 putative active site [active] 296591004924 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 296591004925 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591004926 FAD binding site [chemical binding]; other site 296591004927 substrate binding pocket [chemical binding]; other site 296591004928 catalytic base [active] 296591004929 Helix-turn-helix domains; Region: HTH; cl00088 296591004930 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 296591004931 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 296591004932 putative dimerization interface [polypeptide binding]; other site 296591004933 putative substrate binding pocket [chemical binding]; other site 296591004934 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 296591004935 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 296591004936 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily; Region: M14_ASTE_ASPA_like; cd06230 296591004937 active site 296591004938 Zn binding site [ion binding]; other site 296591004939 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 296591004940 S-adenosylmethionine binding site [chemical binding]; other site 296591004941 Helix-turn-helix domains; Region: HTH; cl00088 296591004942 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 296591004943 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591004944 Walker A/P-loop; other site 296591004945 ATP binding site [chemical binding]; other site 296591004946 Q-loop/lid; other site 296591004947 ABC transporter signature motif; other site 296591004948 Walker B; other site 296591004949 D-loop; other site 296591004950 H-loop/switch region; other site 296591004951 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 296591004952 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 296591004953 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 296591004954 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 296591004955 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; cl00284 296591004956 Membrane transport protein; Region: Mem_trans; cl09117 296591004957 Protein of unknown function, DUF486; Region: DUF486; cl01236 296591004958 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 296591004959 Phosphate transporter family; Region: PHO4; cl00396 296591004960 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 296591004961 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591004962 Coenzyme A binding pocket [chemical binding]; other site 296591004963 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 296591004964 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 296591004965 RimM N-terminal domain; Region: RimM; pfam01782 296591004966 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 296591004967 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 296591004968 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 296591004969 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 296591004970 putative active site [active] 296591004971 putative CoA binding site [chemical binding]; other site 296591004972 nudix motif; other site 296591004973 metal binding site [ion binding]; metal-binding site 296591004974 CobD/Cbib protein; Region: CobD_Cbib; cl00561 296591004975 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 296591004976 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 296591004977 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591004978 homodimer interface [polypeptide binding]; other site 296591004979 catalytic residue [active] 296591004980 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 296591004981 GTPase RsgA; Reviewed; Region: PRK00098 296591004982 RNA binding site [nucleotide binding]; other site 296591004983 homodimer interface [polypeptide binding]; other site 296591004984 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 296591004985 GTPase/Zn-binding domain interface [polypeptide binding]; other site 296591004986 GTP/Mg2+ binding site [chemical binding]; other site 296591004987 G4 box; other site 296591004988 G5 box; other site 296591004989 G1 box; other site 296591004990 Switch I region; other site 296591004991 G2 box; other site 296591004992 G3 box; other site 296591004993 Switch II region; other site 296591004994 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 296591004995 aromatic arch; other site 296591004996 DCoH dimer interaction site [polypeptide binding]; other site 296591004997 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 296591004998 DCoH tetramer interaction site [polypeptide binding]; other site 296591004999 substrate binding site [chemical binding]; other site 296591005000 Peptidase family M48; Region: Peptidase_M48; cl12018 296591005001 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 296591005002 putative active site [active] 296591005003 putative substrate binding site [chemical binding]; other site 296591005004 catalytic site [active] 296591005005 dimer interface [polypeptide binding]; other site 296591005006 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 296591005007 DEAD-like helicases superfamily; Region: DEXDc; smart00487 296591005008 ATP binding site [chemical binding]; other site 296591005009 Mg++ binding site [ion binding]; other site 296591005010 motif III; other site 296591005011 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 296591005012 nucleotide binding region [chemical binding]; other site 296591005013 ATP-binding site [chemical binding]; other site 296591005014 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591005015 Putative phage integrase; Region: Phage_Integr_2; pfam13009 296591005016 Putative phage integrase; Region: Phage_Integr_2; pfam13009 296591005017 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 296591005018 DNA binding site [nucleotide binding] 296591005019 Int/Topo IB signature motif; other site 296591005020 active site 296591005021 catalytic residues [active] 296591005022 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 296591005023 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591005024 Family description; Region: UvrD_C_2; cl15862 296591005025 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591005026 NMT1-like family; Region: NMT1_2; cl15260 296591005027 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591005028 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591005029 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 296591005030 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 296591005031 Transcriptional regulators [Transcription]; Region: FadR; COG2186 296591005032 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591005033 DNA-binding site [nucleotide binding]; DNA binding site 296591005034 FCD domain; Region: FCD; cl11656 296591005035 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 296591005036 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591005037 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 296591005038 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591005039 SAF domain; Region: SAF; cl00555 296591005040 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 296591005041 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591005042 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591005043 DNA-binding site [nucleotide binding]; DNA binding site 296591005044 FCD domain; Region: FCD; cl11656 296591005045 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591005046 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 296591005047 substrate binding pocket [chemical binding]; other site 296591005048 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 296591005049 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 296591005050 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 296591005051 active site 296591005052 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591005053 Helix-turn-helix domains; Region: HTH; cl00088 296591005054 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 296591005055 dimerization interface [polypeptide binding]; other site 296591005056 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 296591005057 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 296591005058 metal binding site [ion binding]; metal-binding site 296591005059 putative dimer interface [polypeptide binding]; other site 296591005060 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591005061 NMT1-like family; Region: NMT1_2; cl15260 296591005062 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 296591005063 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591005064 Family description; Region: UvrD_C_2; cl15862 296591005065 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 296591005066 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 296591005067 Phosphotransferase enzyme family; Region: APH; pfam01636 296591005068 putative active site [active] 296591005069 putative substrate binding site [chemical binding]; other site 296591005070 ATP binding site [chemical binding]; other site 296591005071 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 296591005072 DNA polymerase I; Provisional; Region: PRK05755 296591005073 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 296591005074 active site 296591005075 metal binding site 1 [ion binding]; metal-binding site 296591005076 putative 5' ssDNA interaction site; other site 296591005077 metal binding site 3; metal-binding site 296591005078 metal binding site 2 [ion binding]; metal-binding site 296591005079 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 296591005080 putative DNA binding site [nucleotide binding]; other site 296591005081 putative metal binding site [ion binding]; other site 296591005082 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 296591005083 active site 296591005084 catalytic site [active] 296591005085 substrate binding site [chemical binding]; other site 296591005086 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 296591005087 active site 296591005088 DNA binding site [nucleotide binding] 296591005089 catalytic site [active] 296591005090 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 296591005091 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 296591005092 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 296591005093 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 296591005094 Dienelactone hydrolase family; Region: DLH; pfam01738 296591005095 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 296591005096 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 296591005097 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 296591005098 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591005099 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 296591005100 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 296591005101 substrate binding site [chemical binding]; other site 296591005102 ATP binding site [chemical binding]; other site 296591005103 Transcriptional regulators [Transcription]; Region: PurR; COG1609 296591005104 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 296591005105 DNA binding site [nucleotide binding] 296591005106 domain linker motif; other site 296591005107 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 296591005108 putative dimerization interface [polypeptide binding]; other site 296591005109 putative ligand binding site [chemical binding]; other site 296591005110 PAS domain S-box; Region: sensory_box; TIGR00229 296591005111 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 296591005112 putative active site [active] 296591005113 heme pocket [chemical binding]; other site 296591005114 PAS domain S-box; Region: sensory_box; TIGR00229 296591005115 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 296591005116 putative active site [active] 296591005117 heme pocket [chemical binding]; other site 296591005118 GAF domain; Region: GAF; cl15785 296591005119 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 296591005120 dimer interface [polypeptide binding]; other site 296591005121 phosphorylation site [posttranslational modification] 296591005122 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 296591005123 ATP binding site [chemical binding]; other site 296591005124 Mg2+ binding site [ion binding]; other site 296591005125 G-X-G motif; other site 296591005126 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 296591005127 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 296591005128 active site residue [active] 296591005129 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 296591005130 active site residue [active] 296591005131 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 296591005132 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 296591005133 [2Fe-2S] cluster binding site [ion binding]; other site 296591005134 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 296591005135 alpha subunit interface [polypeptide binding]; other site 296591005136 active site 296591005137 substrate binding site [chemical binding]; other site 296591005138 Fe binding site [ion binding]; other site 296591005139 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 296591005140 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 296591005141 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 296591005142 substrate binding pocket [chemical binding]; other site 296591005143 chain length determination region; other site 296591005144 substrate-Mg2+ binding site; other site 296591005145 catalytic residues [active] 296591005146 aspartate-rich region 1; other site 296591005147 active site lid residues [active] 296591005148 aspartate-rich region 2; other site 296591005149 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 296591005150 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 296591005151 TPP-binding site; other site 296591005152 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 296591005153 PYR/PP interface [polypeptide binding]; other site 296591005154 dimer interface [polypeptide binding]; other site 296591005155 TPP binding site [chemical binding]; other site 296591005156 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 296591005157 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591005158 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591005159 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591005160 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591005161 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 296591005162 DctM-like transporters; Region: DctM; pfam06808 296591005163 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 296591005164 selenophosphate synthetase; Provisional; Region: PRK00943 296591005165 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 296591005166 dimerization interface [polypeptide binding]; other site 296591005167 putative ATP binding site [chemical binding]; other site 296591005168 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 296591005169 TIGR03440 family protein; Region: unchr_TIGR03440 296591005170 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 296591005171 Helix-turn-helix domains; Region: HTH; cl00088 296591005172 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 296591005173 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 296591005174 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 296591005175 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 296591005176 Walker A/P-loop; other site 296591005177 ATP binding site [chemical binding]; other site 296591005178 Q-loop/lid; other site 296591005179 ABC transporter signature motif; other site 296591005180 Walker B; other site 296591005181 D-loop; other site 296591005182 H-loop/switch region; other site 296591005183 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 296591005184 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 296591005185 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 296591005186 Protein of unknown function (DUF461); Region: DUF461; cl01071 296591005187 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 296591005188 Helix-turn-helix domains; Region: HTH; cl00088 296591005189 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 296591005190 dimerization interface [polypeptide binding]; other site 296591005191 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591005192 NMT1-like family; Region: NMT1_2; cl15260 296591005193 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; cl15754 296591005194 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 296591005195 Helix-turn-helix domains; Region: HTH; cl00088 296591005196 CrcB-like protein; Region: CRCB; cl09114 296591005197 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 296591005198 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 296591005199 DctM-like transporters; Region: DctM; pfam06808 296591005200 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 296591005201 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591005202 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591005203 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591005204 Helix-turn-helix domains; Region: HTH; cl00088 296591005205 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 296591005206 dimerization interface [polypeptide binding]; other site 296591005207 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 296591005208 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591005209 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 296591005210 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 296591005211 DctM-like transporters; Region: DctM; pfam06808 296591005212 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591005213 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591005214 5-oxoprolinase; Region: PLN02666 296591005215 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 296591005216 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 296591005217 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 296591005218 DinB superfamily; Region: DinB_2; pfam12867 296591005219 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 296591005220 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 296591005221 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 296591005222 NADP binding site [chemical binding]; other site 296591005223 homopentamer interface [polypeptide binding]; other site 296591005224 substrate binding site [chemical binding]; other site 296591005225 active site 296591005226 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 296591005227 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 296591005228 putative ribose interaction site [chemical binding]; other site 296591005229 putative ADP binding site [chemical binding]; other site 296591005230 tetratricopeptide repeat protein; Provisional; Region: PRK11788 296591005231 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 296591005232 binding surface 296591005233 TPR motif; other site 296591005234 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591005235 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 296591005236 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 296591005237 IHF dimer interface [polypeptide binding]; other site 296591005238 IHF - DNA interface [nucleotide binding]; other site 296591005239 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 296591005240 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 296591005241 RNA binding site [nucleotide binding]; other site 296591005242 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 296591005243 RNA binding site [nucleotide binding]; other site 296591005244 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 296591005245 RNA binding site [nucleotide binding]; other site 296591005246 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 of...; Region: S1_RPS1_repeat_ec4; cd05689 296591005247 RNA binding site [nucleotide binding]; other site 296591005248 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 of...; Region: S1_RPS1_repeat_ec5; cd05690 296591005249 RNA binding site [nucleotide binding]; other site 296591005250 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 of...; Region: S1_RPS1_repeat_ec6; cd05691 296591005251 RNA binding site [nucleotide binding]; other site 296591005252 bifunctional 3-phosphoshikimate 1-carboxyvinyltransferase/cytidine monophosphate kinase; Provisional; Region: PRK11860 296591005253 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 296591005254 hinge; other site 296591005255 active site 296591005256 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 296591005257 CMP-binding site; other site 296591005258 The sites determining sugar specificity; other site 296591005259 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 296591005260 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591005261 Chorismate mutase type II; Region: CM_2; cl00693 296591005262 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 296591005263 Prephenate dehydratase; Region: PDT; pfam00800 296591005264 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 296591005265 putative L-Phe binding site [chemical binding]; other site 296591005266 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 296591005267 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 296591005268 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591005269 catalytic residue [active] 296591005270 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 296591005271 DNA gyrase subunit A; Validated; Region: PRK05560 296591005272 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 296591005273 CAP-like domain; other site 296591005274 active site 296591005275 primary dimer interface [polypeptide binding]; other site 296591005276 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 296591005277 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 296591005278 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 296591005279 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 296591005280 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 296591005281 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 296591005282 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 296591005283 ligand binding site [chemical binding]; other site 296591005284 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 296591005285 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 296591005286 S-adenosylmethionine binding site [chemical binding]; other site 296591005287 phosphoglycolate phosphatase; Provisional; Region: PRK13222 296591005288 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 296591005289 motif II; other site 296591005290 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 296591005291 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 296591005292 RNA binding surface [nucleotide binding]; other site 296591005293 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 296591005294 active site 296591005295 uracil binding [chemical binding]; other site 296591005296 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 296591005297 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 296591005298 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 296591005299 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 296591005300 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 296591005301 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 296591005302 NodB motif; other site 296591005303 active site 296591005304 catalytic site [active] 296591005305 metal binding site [ion binding]; metal-binding site 296591005306 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 296591005307 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 296591005308 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 296591005309 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 296591005310 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 296591005311 putative MPT binding site; other site 296591005312 glutamine synthetase; Provisional; Region: glnA; PRK09469 296591005313 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 296591005314 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 296591005315 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 296591005316 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 296591005317 dimer interface [polypeptide binding]; other site 296591005318 phosphorylation site [posttranslational modification] 296591005319 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 296591005320 ATP binding site [chemical binding]; other site 296591005321 Mg2+ binding site [ion binding]; other site 296591005322 G-X-G motif; other site 296591005323 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 296591005324 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 296591005325 active site 296591005326 phosphorylation site [posttranslational modification] 296591005327 intermolecular recognition site; other site 296591005328 dimerization interface [polypeptide binding]; other site 296591005329 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 296591005330 Walker A motif; other site 296591005331 ATP binding site [chemical binding]; other site 296591005332 Walker B motif; other site 296591005333 arginine finger; other site 296591005334 Helix-turn-helix domains; Region: HTH; cl00088 296591005335 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 296591005336 Response regulator receiver domain; Region: Response_reg; pfam00072 296591005337 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 296591005338 active site 296591005339 phosphorylation site [posttranslational modification] 296591005340 intermolecular recognition site; other site 296591005341 dimerization interface [polypeptide binding]; other site 296591005342 Response regulator receiver domain; Region: Response_reg; pfam00072 296591005343 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 296591005344 active site 296591005345 phosphorylation site [posttranslational modification] 296591005346 intermolecular recognition site; other site 296591005347 dimerization interface [polypeptide binding]; other site 296591005348 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 296591005349 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 296591005350 putative active site [active] 296591005351 heme pocket [chemical binding]; other site 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 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 296591005360 non-specific DNA binding site [nucleotide binding]; other site 296591005361 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 296591005362 salt bridge; other site 296591005363 sequence-specific DNA binding site [nucleotide binding]; other site 296591005364 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 296591005365 Catalytic site [active] 296591005366 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591005367 Helix-turn-helix domains; Region: HTH; cl00088 296591005368 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 296591005369 dimerization interface [polypeptide binding]; other site 296591005370 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591005371 NMT1-like family; Region: NMT1_2; cl15260 296591005372 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 296591005373 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 296591005374 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 296591005375 putative phosphate binding site [ion binding]; other site 296591005376 putative catalytic site [active] 296591005377 active site 296591005378 metal binding site A [ion binding]; metal-binding site 296591005379 DNA binding site [nucleotide binding] 296591005380 putative AP binding site [nucleotide binding]; other site 296591005381 putative metal binding site B [ion binding]; other site 296591005382 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 296591005383 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 296591005384 folate binding site [chemical binding]; other site 296591005385 NADP+ binding site [chemical binding]; other site 296591005386 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 296591005387 dimerization interface [polypeptide binding]; other site 296591005388 active site 296591005389 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 296591005390 active site 296591005391 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591005392 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 296591005393 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591005394 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 296591005395 FAD binding domain; Region: FAD_binding_4; pfam01565 296591005396 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 296591005397 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 296591005398 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 296591005399 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 296591005400 catalytic residues [active] 296591005401 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591005402 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591005403 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591005404 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 296591005405 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 296591005406 homodimer interface [polypeptide binding]; other site 296591005407 substrate-cofactor binding pocket; other site 296591005408 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591005409 catalytic residue [active] 296591005410 FOG: CBS domain [General function prediction only]; Region: COG0517 296591005411 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 296591005412 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 296591005413 Peptidase S8 family domain in ProteinaseK-like proteins; Region: Peptidases_S8_PCSK9_ProteinaseK_like; cd04077 296591005414 calcium binding site 2 [ion binding]; other site 296591005415 active site 296591005416 catalytic triad [active] 296591005417 calcium binding site 1 [ion binding]; other site 296591005418 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 296591005419 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 296591005420 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 296591005421 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 296591005422 putative N-terminal domain interface [polypeptide binding]; other site 296591005423 putative dimer interface [polypeptide binding]; other site 296591005424 putative substrate binding pocket (H-site) [chemical binding]; other site 296591005425 Cupin domain; Region: Cupin_2; cl09118 296591005426 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 296591005427 Tetramer interface [polypeptide binding]; other site 296591005428 active site 296591005429 FMN-binding site [chemical binding]; other site 296591005430 EamA-like transporter family; Region: EamA; cl01037 296591005431 EamA-like transporter family; Region: EamA; cl01037 296591005432 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 296591005433 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 296591005434 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 296591005435 Helix-turn-helix domains; Region: HTH; cl00088 296591005436 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591005437 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 296591005438 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 296591005439 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 296591005440 NAD(P) binding site [chemical binding]; other site 296591005441 shikimate binding site; other site 296591005442 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591005443 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 296591005444 ligand binding site [chemical binding]; other site 296591005445 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 296591005446 TM-ABC transporter signature motif; other site 296591005447 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 296591005448 TM-ABC transporter signature motif; other site 296591005449 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591005450 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 296591005451 Walker A/P-loop; other site 296591005452 ATP binding site [chemical binding]; other site 296591005453 Q-loop/lid; other site 296591005454 ABC transporter signature motif; other site 296591005455 Walker B; other site 296591005456 D-loop; other site 296591005457 H-loop/switch region; other site 296591005458 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591005459 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 296591005460 Walker A/P-loop; other site 296591005461 ATP binding site [chemical binding]; other site 296591005462 Q-loop/lid; other site 296591005463 ABC transporter signature motif; other site 296591005464 Walker B; other site 296591005465 D-loop; other site 296591005466 H-loop/switch region; other site 296591005467 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 296591005468 dimer interface [polypeptide binding]; other site 296591005469 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 296591005470 active site 296591005471 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 296591005472 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 296591005473 Lyase; Region: Lyase_1; pfam00206 296591005474 tetramer interface [polypeptide binding]; other site 296591005475 active site 296591005476 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 296591005477 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 296591005478 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591005479 RF-1 domain; Region: RF-1; cl02875 296591005480 transcriptional regulator; Provisional; Region: PRK10632 296591005481 Helix-turn-helix domains; Region: HTH; cl00088 296591005482 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 296591005483 putative effector binding pocket; other site 296591005484 dimerization interface [polypeptide binding]; other site 296591005485 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 296591005486 putative active site [active] 296591005487 metal binding site [ion binding]; metal-binding site 296591005488 Predicted esterase [General function prediction only]; Region: COG0400 296591005489 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591005490 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 296591005491 active site pocket [active] 296591005492 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591005493 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591005494 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 296591005495 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 296591005496 glycine dehydrogenase; Provisional; Region: PRK05367 296591005497 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 296591005498 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591005499 catalytic residue [active] 296591005500 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 296591005501 tetramer interface [polypeptide binding]; other site 296591005502 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591005503 catalytic residue [active] 296591005504 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 296591005505 lipoyl attachment site [posttranslational modification]; other site 296591005506 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 296591005507 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 296591005508 DctM-like transporters; Region: DctM; pfam06808 296591005509 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 296591005510 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 296591005511 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591005512 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591005513 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591005514 NAD(P) binding site [chemical binding]; other site 296591005515 active site 296591005516 OpgC protein; Region: OpgC_C; cl00792 296591005517 Acyltransferase family; Region: Acyl_transf_3; pfam01757 296591005518 transcriptional regulator EpsA; Region: EpsA; TIGR03020 296591005519 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 296591005520 DNA binding residues [nucleotide binding] 296591005521 dimerization interface [polypeptide binding]; other site 296591005522 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 296591005523 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591005524 Bacterial sugar transferase; Region: Bac_transf; cl00939 296591005525 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 296591005526 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 296591005527 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 296591005528 SLBB domain; Region: SLBB; pfam10531 296591005529 chain length determinant protein EpsF; Region: EpsF; TIGR03017 296591005530 Chain length determinant protein; Region: Wzz; cl15801 296591005531 chain length determinant protein tyrosine kinase EpsG; Region: EpsG; TIGR03029 296591005532 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 296591005533 Nucleotide binding site [chemical binding]; other site 296591005534 DTAP/Switch II; other site 296591005535 Switch I; other site 296591005536 VanZ like family; Region: VanZ; cl01971 296591005537 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 296591005538 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 296591005539 trimer interface [polypeptide binding]; other site 296591005540 active site 296591005541 substrate binding site [chemical binding]; other site 296591005542 CoA binding site [chemical binding]; other site 296591005543 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 296591005544 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591005545 NAD(P) binding site [chemical binding]; other site 296591005546 active site 296591005547 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 296591005548 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591005549 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 296591005550 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 296591005551 OpgC protein; Region: OpgC_C; cl00792 296591005552 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 296591005553 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 296591005554 active site 296591005555 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 296591005556 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 296591005557 active site 296591005558 O-Antigen ligase; Region: Wzy_C; cl04850 296591005559 MatE; Region: MatE; cl10513 296591005560 UDP-glucose 4-epimerase; Region: PLN02240 296591005561 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 296591005562 NAD binding site [chemical binding]; other site 296591005563 homodimer interface [polypeptide binding]; other site 296591005564 active site 296591005565 substrate binding site [chemical binding]; other site 296591005566 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 296591005567 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 296591005568 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 296591005569 short chain dehydrogenase; Provisional; Region: PRK12939 296591005570 classical (c) SDRs; Region: SDR_c; cd05233 296591005571 NAD(P) binding site [chemical binding]; other site 296591005572 active site 296591005573 EamA-like transporter family; Region: EamA; cl01037 296591005574 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 296591005575 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 296591005576 active site 296591005577 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 296591005578 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 296591005579 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 296591005580 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 296591005581 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 296591005582 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 296591005583 PAS domain; Region: PAS_9; pfam13426 296591005584 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 296591005585 DNA binding residues [nucleotide binding] 296591005586 dimerization interface [polypeptide binding]; other site 296591005587 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 296591005588 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 296591005589 Helix-turn-helix domains; Region: HTH; cl00088 296591005590 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591005591 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 296591005592 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 296591005593 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 296591005594 FMN-binding pocket [chemical binding]; other site 296591005595 flavin binding motif; other site 296591005596 phosphate binding motif [ion binding]; other site 296591005597 beta-alpha-beta structure motif; other site 296591005598 NAD binding pocket [chemical binding]; other site 296591005599 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 296591005600 catalytic loop [active] 296591005601 iron binding site [ion binding]; other site 296591005602 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 296591005603 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 296591005604 hydrophobic ligand binding site; other site 296591005605 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591005606 NMT1-like family; Region: NMT1_2; cl15260 296591005607 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 296591005608 EamA-like transporter family; Region: EamA; cl01037 296591005609 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 296591005610 S-adenosylmethionine binding site [chemical binding]; other site 296591005611 Winged helix-turn helix; Region: HTH_29; pfam13551 296591005612 RelB antitoxin; Region: RelB; cl01171 296591005613 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 296591005614 GIY-YIG motif/motif A; other site 296591005615 putative active site [active] 296591005616 putative metal binding site [ion binding]; other site 296591005617 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 296591005618 Ligand Binding Site [chemical binding]; other site 296591005619 Transposase domain (DUF772); Region: DUF772; cl15789 296591005620 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 296591005621 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 296591005622 PLD-like domain; Region: PLDc_2; pfam13091 296591005623 putative active site [active] 296591005624 catalytic site [active] 296591005625 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 296591005626 non-specific DNA binding site [nucleotide binding]; other site 296591005627 salt bridge; other site 296591005628 sequence-specific DNA binding site [nucleotide binding]; other site 296591005629 Domain of unknown function (DUF955); Region: DUF955; cl01076 296591005630 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 296591005631 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 296591005632 Integrase core domain; Region: rve; cl01316 296591005633 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 296591005634 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 296591005635 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 296591005636 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 296591005637 Walker A motif; other site 296591005638 ATP binding site [chemical binding]; other site 296591005639 Walker B motif; other site 296591005640 HsdM N-terminal domain; Region: HsdM_N; pfam12161 296591005641 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 296591005642 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591005643 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 296591005644 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 296591005645 GIY-YIG motif/motif A; other site 296591005646 putative active site [active] 296591005647 putative metal binding site [ion binding]; other site 296591005648 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 296591005649 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 296591005650 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 296591005651 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 296591005652 ATP binding site [chemical binding]; other site 296591005653 putative Mg++ binding site [ion binding]; other site 296591005654 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 296591005655 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 296591005656 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 296591005657 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 296591005658 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 296591005659 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591005660 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591005661 Family description; Region: UvrD_C_2; cl15862 296591005662 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 296591005663 putative active site [active] 296591005664 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 296591005665 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 296591005666 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 296591005667 DNA binding site [nucleotide binding] 296591005668 Int/Topo IB signature motif; other site 296591005669 active site 296591005670 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 296591005671 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 296591005672 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 296591005673 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 296591005674 active site 296591005675 phosphorylation site [posttranslational modification] 296591005676 intermolecular recognition site; other site 296591005677 dimerization interface [polypeptide binding]; other site 296591005678 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 296591005679 DNA binding site [nucleotide binding] 296591005680 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 296591005681 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 296591005682 dimer interface [polypeptide binding]; other site 296591005683 phosphorylation site [posttranslational modification] 296591005684 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 296591005685 ATP binding site [chemical binding]; other site 296591005686 Mg2+ binding site [ion binding]; other site 296591005687 G-X-G motif; other site 296591005688 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 296591005689 cytosine deaminase; Validated; Region: PRK07572 296591005690 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 296591005691 active site 296591005692 HupE / UreJ protein; Region: HupE_UreJ; cl01011 296591005693 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 296591005694 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 296591005695 binding surface 296591005696 TPR motif; other site 296591005697 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 296591005698 active site 296591005699 Protein of unknown function (DUF1688); Region: DUF1688; pfam07958 296591005700 hypothetical protein; Validated; Region: PRK07198 296591005701 GTP cyclohydrolase N terminal; Region: GTP_CH_N; pfam12471 296591005702 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 296591005703 dimerization interface [polypeptide binding]; other site 296591005704 active site 296591005705 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 296591005706 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 296591005707 Walker A motif; other site 296591005708 ATP binding site [chemical binding]; other site 296591005709 Transcriptional regulator; Region: Transcrip_reg; cl00361 296591005710 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 296591005711 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 296591005712 ATP-grasp domain; Region: ATP-grasp_4; cl03087 296591005713 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 296591005714 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 296591005715 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 296591005716 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 296591005717 active site 296591005718 (T/H)XGH motif; other site 296591005719 Oligomerisation domain; Region: Oligomerisation; cl00519 296591005720 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 296591005721 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 296591005722 Maf-like protein; Region: Maf; pfam02545 296591005723 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 296591005724 active site 296591005725 dimer interface [polypeptide binding]; other site 296591005726 ribonuclease G; Provisional; Region: PRK11712 296591005727 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 296591005728 homodimer interface [polypeptide binding]; other site 296591005729 oligonucleotide binding site [chemical binding]; other site 296591005730 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 296591005731 putative active site [active] 296591005732 putative metal binding site [ion binding]; other site 296591005733 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 296591005734 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 296591005735 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 296591005736 active site 296591005737 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 296591005738 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 296591005739 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591005740 Walker A/P-loop; other site 296591005741 ATP binding site [chemical binding]; other site 296591005742 Q-loop/lid; other site 296591005743 ABC transporter signature motif; other site 296591005744 Walker B; other site 296591005745 D-loop; other site 296591005746 H-loop/switch region; other site 296591005747 O-Antigen ligase; Region: Wzy_C; cl04850 296591005748 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 296591005749 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 296591005750 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 296591005751 putative metal binding site; other site 296591005752 translocation protein TolB; Provisional; Region: tolB; PRK02889 296591005753 TolB amino-terminal domain; Region: TolB_N; cl00639 296591005754 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 296591005755 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 296591005756 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 296591005757 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 296591005758 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 296591005759 ligand binding site [chemical binding]; other site 296591005760 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 296591005761 Tetratricopeptide repeat; Region: TPR_6; pfam13174 296591005762 Predicted transporter component [General function prediction only]; Region: COG2391 296591005763 Sulphur transport; Region: Sulf_transp; cl01018 296591005764 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 296591005765 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 296591005766 putative ATP binding site [chemical binding]; other site 296591005767 putative substrate interface [chemical binding]; other site 296591005768 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 296591005769 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 296591005770 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 296591005771 ABC transporter; Region: ABC_tran_2; pfam12848 296591005772 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 296591005773 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 296591005774 S-adenosylmethionine binding site [chemical binding]; other site 296591005775 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 296591005776 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 296591005777 metal binding site [ion binding]; metal-binding site 296591005778 dimer interface [polypeptide binding]; other site 296591005779 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 296591005780 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591005781 Walker A motif; other site 296591005782 ATP binding site [chemical binding]; other site 296591005783 Walker B motif; other site 296591005784 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 296591005785 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 296591005786 active site 296591005787 substrate binding site [chemical binding]; other site 296591005788 trimer interface [polypeptide binding]; other site 296591005789 CoA binding site [chemical binding]; other site 296591005790 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 296591005791 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 296591005792 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591005793 homodimer interface [polypeptide binding]; other site 296591005794 catalytic residue [active] 296591005795 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 296591005796 Helix-turn-helix domains; Region: HTH; cl00088 296591005797 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 296591005798 dimerization interface [polypeptide binding]; other site 296591005799 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 296591005800 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591005801 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 296591005802 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591005803 substrate binding pocket [chemical binding]; other site 296591005804 membrane-bound complex binding site; other site 296591005805 hinge residues; other site 296591005806 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 296591005807 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 296591005808 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 296591005809 putative active site [active] 296591005810 hypothetical protein; Provisional; Region: PRK07483 296591005811 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 296591005812 inhibitor-cofactor binding pocket; inhibition site 296591005813 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591005814 catalytic residue [active] 296591005815 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 296591005816 NMT1-like family; Region: NMT1_2; cl15260 296591005817 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 296591005818 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 296591005819 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 296591005820 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 296591005821 RNA binding surface [nucleotide binding]; other site 296591005822 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 296591005823 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 296591005824 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 296591005825 dimer interface [polypeptide binding]; other site 296591005826 phosphorylation site [posttranslational modification] 296591005827 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 296591005828 ATP binding site [chemical binding]; other site 296591005829 Mg2+ binding site [ion binding]; other site 296591005830 G-X-G motif; other site 296591005831 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 296591005832 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 296591005833 active site 296591005834 phosphorylation site [posttranslational modification] 296591005835 intermolecular recognition site; other site 296591005836 dimerization interface [polypeptide binding]; other site 296591005837 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 296591005838 DNA binding site [nucleotide binding] 296591005839 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591005840 NMT1-like family; Region: NMT1_2; cl15260 296591005841 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 296591005842 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 296591005843 NMT1-like family; Region: NMT1_2; cl15260 296591005844 ferrochelatase; Reviewed; Region: hemH; PRK00035 296591005845 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 296591005846 C-terminal domain interface [polypeptide binding]; other site 296591005847 active site 296591005848 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 296591005849 active site 296591005850 N-terminal domain interface [polypeptide binding]; other site 296591005851 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 296591005852 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 296591005853 motif II; other site 296591005854 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 296591005855 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 296591005856 putative C-terminal domain interface [polypeptide binding]; other site 296591005857 putative GSH binding site (G-site) [chemical binding]; other site 296591005858 putative dimer interface [polypeptide binding]; other site 296591005859 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 296591005860 dimer interface [polypeptide binding]; other site 296591005861 N-terminal domain interface [polypeptide binding]; other site 296591005862 putative substrate binding pocket (H-site) [chemical binding]; other site 296591005863 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 296591005864 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 296591005865 catalytic residues [active] 296591005866 substrate binding pocket [chemical binding]; other site 296591005867 substrate-Mg2+ binding site; other site 296591005868 aspartate-rich region 1; other site 296591005869 aspartate-rich region 2; other site 296591005870 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 296591005871 active site lid residues [active] 296591005872 substrate binding pocket [chemical binding]; other site 296591005873 catalytic residues [active] 296591005874 substrate-Mg2+ binding site; other site 296591005875 aspartate-rich region 1; other site 296591005876 aspartate-rich region 2; other site 296591005877 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591005878 Helix-turn-helix domains; Region: HTH; cl00088 296591005879 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 296591005880 dimerization interface [polypeptide binding]; other site 296591005881 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 296591005882 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 296591005883 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 296591005884 putative PBP binding loops; other site 296591005885 ABC-ATPase subunit interface; other site 296591005886 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 296591005887 dimer interface [polypeptide binding]; other site 296591005888 conserved gate region; other site 296591005889 putative PBP binding loops; other site 296591005890 ABC-ATPase subunit interface; other site 296591005891 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 296591005892 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591005893 Walker A/P-loop; other site 296591005894 ATP binding site [chemical binding]; other site 296591005895 Q-loop/lid; other site 296591005896 ABC transporter signature motif; other site 296591005897 Walker B; other site 296591005898 D-loop; other site 296591005899 H-loop/switch region; other site 296591005900 TOBE domain; Region: TOBE_2; cl01440 296591005901 ornithine cyclodeaminase; Validated; Region: PRK06141 296591005902 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591005903 Arginase family; Region: Arginase; cl00306 296591005904 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 296591005905 homotrimer interaction site [polypeptide binding]; other site 296591005906 putative active site [active] 296591005907 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 296591005908 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 296591005909 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 296591005910 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 296591005911 trigger factor; Provisional; Region: tig; PRK01490 296591005912 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 296591005913 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 296591005914 Clp protease; Region: CLP_protease; pfam00574 296591005915 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 296591005916 oligomer interface [polypeptide binding]; other site 296591005917 active site residues [active] 296591005918 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 296591005919 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 296591005920 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 296591005921 Walker A motif; other site 296591005922 ATP binding site [chemical binding]; other site 296591005923 Walker B motif; other site 296591005924 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 296591005925 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 296591005926 Found in ATP-dependent protease La (LON); Region: LON; smart00464 296591005927 Found in ATP-dependent protease La (LON); Region: LON; smart00464 296591005928 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 296591005929 Walker A motif; other site 296591005930 ATP binding site [chemical binding]; other site 296591005931 Walker B motif; other site 296591005932 arginine finger; other site 296591005933 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 296591005934 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591005935 Helix-turn-helix domains; Region: HTH; cl00088 296591005936 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 296591005937 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 296591005938 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 296591005939 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 296591005940 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 296591005941 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 296591005942 cystathionine beta-lyase; Provisional; Region: PRK09028 296591005943 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 296591005944 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591005945 catalytic residue [active] 296591005946 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591005947 NMT1-like family; Region: NMT1_2; cl15260 296591005948 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 296591005949 active site residue [active] 296591005950 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 296591005951 active site residue [active] 296591005952 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 296591005953 active site residue [active] 296591005954 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 296591005955 active site residue [active] 296591005956 Cysteine dioxygenase type I; Region: CDO_I; cl15835 296591005957 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591005958 Helix-turn-helix domains; Region: HTH; cl00088 296591005959 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 296591005960 putative dimerization interface [polypeptide binding]; other site 296591005961 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 296591005962 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 296591005963 class I-fumerate hydratase; Provisional; Region: PLN00133 296591005964 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 296591005965 Fumarase C-terminus; Region: Fumerase_C; cl00795 296591005966 fumarate hydratase; Reviewed; Region: fumC; PRK00485 296591005967 Class II fumarases; Region: Fumarase_classII; cd01362 296591005968 active site 296591005969 tetramer interface [polypeptide binding]; other site 296591005970 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 296591005971 acetyl-CoA synthetase; Provisional; Region: PRK00174 296591005972 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 296591005973 AMP-binding enzyme; Region: AMP-binding; cl15778 296591005974 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591005975 Cytochrome c; Region: Cytochrom_C; cl11414 296591005976 Dehydratase family; Region: ILVD_EDD; cl00340 296591005977 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 296591005978 Helix-turn-helix domains; Region: HTH; cl00088 296591005979 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 296591005980 putative dimerization interface [polypeptide binding]; other site 296591005981 putative substrate binding pocket [chemical binding]; other site 296591005982 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 296591005983 putative active site [active] 296591005984 putative CoA binding site [chemical binding]; other site 296591005985 nudix motif; other site 296591005986 metal binding site [ion binding]; metal-binding site 296591005987 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 296591005988 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 296591005989 HEAT repeats; Region: HEAT_2; pfam13646 296591005990 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 296591005991 binding surface 296591005992 TPR repeat; Region: TPR_11; pfam13414 296591005993 TPR motif; other site 296591005994 TPR repeat; Region: TPR_11; pfam13414 296591005995 NeuB family; Region: NeuB; cl00496 296591005996 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 296591005997 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 296591005998 Helix-turn-helix domains; Region: HTH; cl00088 296591005999 Flavin Reductases; Region: FlaRed; cl00801 296591006000 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591006001 active site 296591006002 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 296591006003 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 296591006004 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 296591006005 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 296591006006 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 296591006007 active site 296591006008 dimer interface [polypeptide binding]; other site 296591006009 metal binding site [ion binding]; metal-binding site 296591006010 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 296591006011 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 296591006012 dimer interface [polypeptide binding]; other site 296591006013 active site 296591006014 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591006015 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 296591006016 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 296591006017 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591006018 Helix-turn-helix domains; Region: HTH; cl00088 296591006019 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 296591006020 putative dimerization interface [polypeptide binding]; other site 296591006021 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591006022 NMT1-like family; Region: NMT1_2; cl15260 296591006023 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 296591006024 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 296591006025 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591006026 catalytic residue [active] 296591006027 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 296591006028 active site pocket [active] 296591006029 oxyanion hole [active] 296591006030 catalytic triad [active] 296591006031 active site nucleophile [active] 296591006032 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 296591006033 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 296591006034 binding surface 296591006035 Tetratricopeptide repeat; Region: TPR_16; pfam13432 296591006036 TPR motif; other site 296591006037 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 296591006038 Uncharacterized conserved protein (DUF2278); Region: DUF2278; pfam10042 296591006039 Uncharacterized conserved protein [Function unknown]; Region: COG5634 296591006040 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 296591006041 S-adenosylmethionine binding site [chemical binding]; other site 296591006042 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 296591006043 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 296591006044 Response regulator receiver domain; Region: Response_reg; pfam00072 296591006045 active site 296591006046 phosphorylation site [posttranslational modification] 296591006047 intermolecular recognition site; other site 296591006048 dimerization interface [polypeptide binding]; other site 296591006049 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 296591006050 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; cl00120 296591006051 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 296591006052 anti sigma factor interaction site; other site 296591006053 regulatory phosphorylation site [posttranslational modification]; other site 296591006054 Transglycosylase; Region: Transgly; cl07896 296591006055 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 296591006056 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 296591006057 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 296591006058 sequence-specific DNA binding site [nucleotide binding]; other site 296591006059 salt bridge; other site 296591006060 Cupin domain; Region: Cupin_2; cl09118 296591006061 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 296591006062 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 296591006063 Winged helix-turn helix; Region: HTH_29; pfam13551 296591006064 Helix-turn-helix domains; Region: HTH; cl00088 296591006065 Helix-turn-helix domains; Region: HTH; cl00088 296591006066 Winged helix-turn helix; Region: HTH_33; pfam13592 296591006067 Integrase core domain; Region: rve; cl01316 296591006068 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 296591006069 patatin-related protein; Region: TIGR03607 296591006070 Protein of unknown function (DUF3376); Region: DUF3376; pfam11856 296591006071 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591006072 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591006073 DNA-binding site [nucleotide binding]; DNA binding site 296591006074 FCD domain; Region: FCD; cl11656 296591006075 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 296591006076 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591006077 NMT1-like family; Region: NMT1_2; cl15260 296591006078 enoyl-CoA hydratase; Provisional; Region: PRK06144 296591006079 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 296591006080 substrate binding site [chemical binding]; other site 296591006081 oxyanion hole (OAH) forming residues; other site 296591006082 trimer interface [polypeptide binding]; other site 296591006083 malonyl-CoA synthase; Validated; Region: PRK07514 296591006084 AMP-binding enzyme; Region: AMP-binding; cl15778 296591006085 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 296591006086 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 296591006087 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 296591006088 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591006089 Walker A/P-loop; other site 296591006090 ATP binding site [chemical binding]; other site 296591006091 Q-loop/lid; other site 296591006092 ABC transporter signature motif; other site 296591006093 Walker B; other site 296591006094 D-loop; other site 296591006095 H-loop/switch region; other site 296591006096 TOBE domain; Region: TOBE_2; cl01440 296591006097 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 296591006098 dimer interface [polypeptide binding]; other site 296591006099 conserved gate region; other site 296591006100 putative PBP binding loops; other site 296591006101 ABC-ATPase subunit interface; other site 296591006102 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 296591006103 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 296591006104 dimer interface [polypeptide binding]; other site 296591006105 conserved gate region; other site 296591006106 putative PBP binding loops; other site 296591006107 ABC-ATPase subunit interface; other site 296591006108 EamA-like transporter family; Region: EamA; cl01037 296591006109 EamA-like transporter family; Region: EamA; cl01037 296591006110 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 296591006111 putative active site pocket [active] 296591006112 dimerization interface [polypeptide binding]; other site 296591006113 putative catalytic residue [active] 296591006114 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 296591006115 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 296591006116 tetramer interface [polypeptide binding]; other site 296591006117 active site 296591006118 Mg2+/Mn2+ binding site [ion binding]; other site 296591006119 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 296591006120 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 296591006121 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 296591006122 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 296591006123 active site 296591006124 dimer interface [polypeptide binding]; other site 296591006125 motif 1; other site 296591006126 motif 2; other site 296591006127 motif 3; other site 296591006128 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 296591006129 anticodon binding site; other site 296591006130 translation initiation factor IF-3; Region: infC; TIGR00168 296591006131 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 296591006132 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 296591006133 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 296591006134 ribosomal protein L20; Region: rpl20; CHL00068 296591006135 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 296591006136 23S rRNA binding site [nucleotide binding]; other site 296591006137 L21 binding site [polypeptide binding]; other site 296591006138 L13 binding site [polypeptide binding]; other site 296591006139 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 296591006140 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 296591006141 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 296591006142 dimer interface [polypeptide binding]; other site 296591006143 motif 1; other site 296591006144 active site 296591006145 motif 2; other site 296591006146 motif 3; other site 296591006147 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 296591006148 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 296591006149 putative tRNA-binding site [nucleotide binding]; other site 296591006150 B3/4 domain; Region: B3_4; cl11458 296591006151 tRNA synthetase B5 domain; Region: B5; cl08394 296591006152 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 296591006153 dimer interface [polypeptide binding]; other site 296591006154 motif 1; other site 296591006155 motif 3; other site 296591006156 motif 2; other site 296591006157 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 296591006158 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 296591006159 IHF - DNA interface [nucleotide binding]; other site 296591006160 IHF dimer interface [polypeptide binding]; other site 296591006161 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 296591006162 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 296591006163 DNA binding residues [nucleotide binding] 296591006164 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 296591006165 putative active site [active] 296591006166 Zn binding site [ion binding]; other site 296591006167 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 296591006168 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 296591006169 metal binding site [ion binding]; metal-binding site 296591006170 putative dimer interface [polypeptide binding]; other site 296591006171 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 296591006172 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 296591006173 dimer interface [polypeptide binding]; other site 296591006174 conserved gate region; other site 296591006175 putative PBP binding loops; other site 296591006176 ABC-ATPase subunit interface; other site 296591006177 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 296591006178 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 296591006179 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 296591006180 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 296591006181 dimer interface [polypeptide binding]; other site 296591006182 conserved gate region; other site 296591006183 putative PBP binding loops; other site 296591006184 ABC-ATPase subunit interface; other site 296591006185 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 296591006186 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 296591006187 Walker A/P-loop; other site 296591006188 ATP binding site [chemical binding]; other site 296591006189 Q-loop/lid; other site 296591006190 ABC transporter signature motif; other site 296591006191 Walker B; other site 296591006192 D-loop; other site 296591006193 H-loop/switch region; other site 296591006194 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591006195 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 296591006196 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 296591006197 Walker A/P-loop; other site 296591006198 ATP binding site [chemical binding]; other site 296591006199 Q-loop/lid; other site 296591006200 ABC transporter signature motif; other site 296591006201 Walker B; other site 296591006202 D-loop; other site 296591006203 H-loop/switch region; other site 296591006204 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591006205 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 296591006206 nudix motif; other site 296591006207 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591006208 NMT1-like family; Region: NMT1_2; cl15260 296591006209 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 296591006210 Helix-turn-helix domains; Region: HTH; cl00088 296591006211 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 296591006212 dimerization interface [polypeptide binding]; other site 296591006213 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591006214 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591006215 DctM-like transporters; Region: DctM; pfam06808 296591006216 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 296591006217 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 296591006218 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 296591006219 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 296591006220 Cupin domain; Region: Cupin_2; cl09118 296591006221 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 296591006222 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591006223 NMT1-like family; Region: NMT1_2; cl15260 296591006224 salicylate hydroxylase; Provisional; Region: PRK08163 296591006225 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591006226 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 296591006227 Helix-turn-helix domains; Region: HTH; cl00088 296591006228 Helix-turn-helix domains; Region: HTH; cl00088 296591006229 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 296591006230 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 296591006231 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 296591006232 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 296591006233 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 296591006234 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 296591006235 hydrophobic ligand binding site; other site 296591006236 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591006237 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591006238 DNA-binding site [nucleotide binding]; DNA binding site 296591006239 FCD domain; Region: FCD; cl11656 296591006240 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 296591006241 Prostaglandin dehydrogenases; Region: PGDH; cd05288 296591006242 NAD(P) binding site [chemical binding]; other site 296591006243 substrate binding site [chemical binding]; other site 296591006244 dimer interface [polypeptide binding]; other site 296591006245 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 296591006246 maleylacetoacetate isomerase; Region: maiA; TIGR01262 296591006247 C-terminal domain interface [polypeptide binding]; other site 296591006248 GSH binding site (G-site) [chemical binding]; other site 296591006249 putative dimer interface [polypeptide binding]; other site 296591006250 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 296591006251 dimer interface [polypeptide binding]; other site 296591006252 N-terminal domain interface [polypeptide binding]; other site 296591006253 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 296591006254 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 296591006255 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 296591006256 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 296591006257 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 296591006258 putative acyltransferase; Provisional; Region: PRK05790 296591006259 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 296591006260 dimer interface [polypeptide binding]; other site 296591006261 active site 296591006262 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 296591006263 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 296591006264 NAD(P) binding site [chemical binding]; other site 296591006265 homotetramer interface [polypeptide binding]; other site 296591006266 homodimer interface [polypeptide binding]; other site 296591006267 active site 296591006268 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591006269 NMT1-like family; Region: NMT1_2; cl15260 296591006270 Uncharacterized conserved protein [Function unknown]; Region: COG2128 296591006271 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 296591006272 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591006273 NMT1-like family; Region: NMT1_2; cl15260 296591006274 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591006275 classical (c) SDRs; Region: SDR_c; cd05233 296591006276 NAD(P) binding site [chemical binding]; other site 296591006277 active site 296591006278 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 296591006279 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 296591006280 active site 296591006281 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591006282 Helix-turn-helix domains; Region: HTH; cl00088 296591006283 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 296591006284 putative dimerization interface [polypeptide binding]; other site 296591006285 putative cation:proton antiport protein; Provisional; Region: PRK10669 296591006286 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 296591006287 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591006288 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 296591006289 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_6; cd06243 296591006290 putative active site [active] 296591006291 Zn binding site [ion binding]; other site 296591006292 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 296591006293 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 296591006294 FMN binding site [chemical binding]; other site 296591006295 active site 296591006296 catalytic residues [active] 296591006297 substrate binding site [chemical binding]; other site 296591006298 Helix-turn-helix domains; Region: HTH; cl00088 296591006299 Helix-turn-helix domains; Region: HTH; cl00088 296591006300 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 296591006301 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591006302 PrkA family serine protein kinase; Provisional; Region: PRK15455 296591006303 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591006304 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 296591006305 Uncharacterized conserved protein [Function unknown]; Region: COG2718 296591006306 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 296591006307 SpoVR family protein; Provisional; Region: PRK11767 296591006308 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 296591006309 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591006310 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591006311 DNA-binding site [nucleotide binding]; DNA binding site 296591006312 FCD domain; Region: FCD; cl11656 296591006313 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 296591006314 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 296591006315 active site 296591006316 substrate binding site [chemical binding]; other site 296591006317 coenzyme B12 binding site [chemical binding]; other site 296591006318 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 296591006319 B12 binding site [chemical binding]; other site 296591006320 cobalt ligand [ion binding]; other site 296591006321 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 296591006322 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 296591006323 membrane ATPase/protein kinase; Provisional; Region: PRK09435 296591006324 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 296591006325 Walker A; other site 296591006326 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 296591006327 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 296591006328 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 296591006329 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591006330 TfoX N-terminal domain; Region: TfoX_N; cl01167 296591006331 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 296591006332 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 296591006333 ATP-grasp domain; Region: ATP-grasp_4; cl03087 296591006334 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 296591006335 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 296591006336 carboxyltransferase (CT) interaction site; other site 296591006337 biotinylation site [posttranslational modification]; other site 296591006338 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 296591006339 dimer interface [polypeptide binding]; other site 296591006340 substrate binding site [chemical binding]; other site 296591006341 metal binding site [ion binding]; metal-binding site 296591006342 D-cysteine desulfhydrase; Validated; Region: PRK03910 296591006343 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 296591006344 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591006345 catalytic residue [active] 296591006346 ferredoxin; Provisional; Region: PRK06991 296591006347 Putative Fe-S cluster; Region: FeS; pfam04060 296591006348 4Fe-4S binding domain; Region: Fer4; cl02805 296591006349 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 296591006350 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 296591006351 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 296591006352 putative active site [active] 296591006353 metal binding site [ion binding]; metal-binding site 296591006354 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 296591006355 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 296591006356 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591006357 homodimer interface [polypeptide binding]; other site 296591006358 catalytic residue [active] 296591006359 excinuclease ABC subunit B; Provisional; Region: PRK05298 296591006360 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 296591006361 ATP binding site [chemical binding]; other site 296591006362 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 296591006363 nucleotide binding region [chemical binding]; other site 296591006364 ATP-binding site [chemical binding]; other site 296591006365 Ultra-violet resistance protein B; Region: UvrB; pfam12344 296591006366 UvrB/uvrC motif; Region: UVR; pfam02151 296591006367 Helix-turn-helix domains; Region: HTH; cl00088 296591006368 Rrf2 family protein; Region: rrf2_super; TIGR00738 296591006369 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 296591006370 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 296591006371 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591006372 catalytic residue [active] 296591006373 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 296591006374 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 296591006375 trimerization site [polypeptide binding]; other site 296591006376 active site 296591006377 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 296591006378 co-chaperone HscB; Provisional; Region: hscB; PRK03578 296591006379 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; cl02542 296591006380 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 296591006381 chaperone protein HscA; Provisional; Region: hscA; PRK05183 296591006382 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 296591006383 catalytic loop [active] 296591006384 iron binding site [ion binding]; other site 296591006385 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 296591006386 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 296591006387 active site 296591006388 substrate binding site [chemical binding]; other site 296591006389 catalytic site [active] 296591006390 FOG: CBS domain [General function prediction only]; Region: COG0517 296591006391 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 296591006392 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 296591006393 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 296591006394 putative active site [active] 296591006395 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591006396 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 296591006397 catalytic triad [active] 296591006398 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 296591006399 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 296591006400 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 296591006401 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591006402 homodimer interface [polypeptide binding]; other site 296591006403 catalytic residue [active] 296591006404 homoserine dehydrogenase; Provisional; Region: PRK06349 296591006405 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591006406 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 296591006407 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 296591006408 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 296591006409 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, cyanobacteria; Region: Thr-synth_2; cd01560 296591006410 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591006411 catalytic residue [active] 296591006412 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 296591006413 Walker A motif; other site 296591006414 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 296591006415 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 296591006416 dimer interface [polypeptide binding]; other site 296591006417 putative functional site; other site 296591006418 putative MPT binding site; other site 296591006419 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 296591006420 MoaE interaction surface [polypeptide binding]; other site 296591006421 MoeB interaction surface [polypeptide binding]; other site 296591006422 thiocarboxylated glycine; other site 296591006423 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 296591006424 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 296591006425 dimer interface [polypeptide binding]; other site 296591006426 active site 296591006427 catalytic residue [active] 296591006428 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 296591006429 MoaE homodimer interface [polypeptide binding]; other site 296591006430 MoaD interaction [polypeptide binding]; other site 296591006431 active site residues [active] 296591006432 Helix-turn-helix domains; Region: HTH; cl00088 296591006433 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591006434 NMT1-like family; Region: NMT1_2; cl15260 296591006435 hypothetical protein; Provisional; Region: PRK07538 296591006436 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591006437 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 296591006438 Clp amino terminal domain; Region: Clp_N; pfam02861 296591006439 Clp amino terminal domain; Region: Clp_N; pfam02861 296591006440 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 296591006441 Walker A motif; other site 296591006442 ATP binding site [chemical binding]; other site 296591006443 Walker B motif; other site 296591006444 arginine finger; other site 296591006445 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 296591006446 Walker A motif; other site 296591006447 ATP binding site [chemical binding]; other site 296591006448 Walker B motif; other site 296591006449 arginine finger; other site 296591006450 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 296591006451 DDE superfamily endonuclease; Region: DDE_5; cl02413 296591006452 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 296591006453 S-adenosylmethionine binding site [chemical binding]; other site 296591006454 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 296591006455 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 296591006456 substrate binding site [chemical binding]; other site 296591006457 dimer interface [polypeptide binding]; other site 296591006458 ATP binding site [chemical binding]; other site 296591006459 DctM-like transporters; Region: DctM; pfam06808 296591006460 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 296591006461 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 296591006462 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591006463 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591006464 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 296591006465 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 296591006466 inhibitor site; inhibition site 296591006467 active site 296591006468 dimer interface [polypeptide binding]; other site 296591006469 catalytic residue [active] 296591006470 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591006471 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591006472 DNA-binding site [nucleotide binding]; DNA binding site 296591006473 FCD domain; Region: FCD; cl11656 296591006474 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 296591006475 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 296591006476 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 296591006477 active site 296591006478 catalytic tetrad [active] 296591006479 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 296591006480 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 296591006481 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591006482 putative acetyltransferase; Provisional; Region: PRK03624 296591006483 Coenzyme A binding pocket [chemical binding]; other site 296591006484 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 296591006485 amphipathic channel; other site 296591006486 Asn-Pro-Ala signature motifs; other site 296591006487 Low molecular weight phosphatase family; Region: LMWPc; cd00115 296591006488 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 296591006489 active site 296591006490 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 296591006491 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 296591006492 putative DNA binding site [nucleotide binding]; other site 296591006493 putative Zn2+ binding site [ion binding]; other site 296591006494 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 296591006495 ArsC family; Region: ArsC; pfam03960 296591006496 catalytic residues [active] 296591006497 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 296591006498 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 296591006499 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 296591006500 Ligand Binding Site [chemical binding]; other site 296591006501 MerE protein; Region: MerE; cl04911 296591006502 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 296591006503 DNA binding residues [nucleotide binding] 296591006504 putative mercuric reductase; Provisional; Region: PRK13748 296591006505 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 296591006506 metal-binding site [ion binding] 296591006507 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591006508 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 296591006509 MerC mercury resistance protein; Region: MerC; cl03934 296591006510 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 296591006511 metal-binding site [ion binding] 296591006512 MerT mercuric transport protein; Region: MerT; cl03578 296591006513 putative transcriptional regulator MerR; Provisional; Region: PRK13752 296591006514 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 296591006515 DNA binding residues [nucleotide binding] 296591006516 dimer interface [polypeptide binding]; other site 296591006517 mercury binding site [ion binding]; other site 296591006518 Zn(II)-responsive transcriptional regulator; Region: ZntR; TIGR02043 296591006519 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 296591006520 DNA binding residues [nucleotide binding] 296591006521 dimer interface [polypeptide binding]; other site 296591006522 metal binding site [ion binding]; metal-binding site 296591006523 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 296591006524 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 296591006525 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 296591006526 substrate binding pocket [chemical binding]; other site 296591006527 membrane-bound complex binding site; other site 296591006528 hinge residues; other site 296591006529 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 296591006530 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591006531 Walker A/P-loop; other site 296591006532 ATP binding site [chemical binding]; other site 296591006533 Q-loop/lid; other site 296591006534 ABC transporter signature motif; other site 296591006535 Walker B; other site 296591006536 D-loop; other site 296591006537 H-loop/switch region; other site 296591006538 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 296591006539 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 296591006540 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 296591006541 dimer interface [polypeptide binding]; other site 296591006542 ABC-ATPase subunit interface; other site 296591006543 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 296591006544 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 296591006545 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 296591006546 putative active site [active] 296591006547 putative metal binding site [ion binding]; other site 296591006548 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 296591006549 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 296591006550 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 296591006551 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 296591006552 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 296591006553 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 296591006554 putative active site [active] 296591006555 catalytic site [active] 296591006556 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 296591006557 putative domain interface [polypeptide binding]; other site 296591006558 putative active site [active] 296591006559 catalytic site [active] 296591006560 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 296591006561 catalytic core [active] 296591006562 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 296591006563 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 296591006564 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591006565 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 296591006566 Fasciclin domain; Region: Fasciclin; cl02663 296591006567 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 296591006568 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 296591006569 dimer interface [polypeptide binding]; other site 296591006570 conserved gate region; other site 296591006571 putative PBP binding loops; other site 296591006572 ABC-ATPase subunit interface; other site 296591006573 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 296591006574 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 296591006575 dimer interface [polypeptide binding]; other site 296591006576 conserved gate region; other site 296591006577 putative PBP binding loops; other site 296591006578 ABC-ATPase subunit interface; other site 296591006579 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 296591006580 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 296591006581 Walker A/P-loop; other site 296591006582 ATP binding site [chemical binding]; other site 296591006583 Q-loop/lid; other site 296591006584 ABC transporter signature motif; other site 296591006585 Walker B; other site 296591006586 D-loop; other site 296591006587 H-loop/switch region; other site 296591006588 transcriptional regulator PhoU; Provisional; Region: PRK11115 296591006589 PhoU domain; Region: PhoU; pfam01895 296591006590 PhoU domain; Region: PhoU; pfam01895 296591006591 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 296591006592 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 296591006593 active site 296591006594 phosphorylation site [posttranslational modification] 296591006595 intermolecular recognition site; other site 296591006596 dimerization interface [polypeptide binding]; other site 296591006597 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 296591006598 DNA binding site [nucleotide binding] 296591006599 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 296591006600 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 296591006601 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 296591006602 dimer interface [polypeptide binding]; other site 296591006603 phosphorylation site [posttranslational modification] 296591006604 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 296591006605 ATP binding site [chemical binding]; other site 296591006606 Mg2+ binding site [ion binding]; other site 296591006607 G-X-G motif; other site 296591006608 MatE; Region: MatE; cl10513 296591006609 MatE; Region: MatE; cl10513 296591006610 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 296591006611 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 296591006612 transcription termination factor Rho; Provisional; Region: rho; PRK09376 296591006613 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 296591006614 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 296591006615 RNA binding site [nucleotide binding]; other site 296591006616 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 296591006617 multimer interface [polypeptide binding]; other site 296591006618 Walker A motif; other site 296591006619 ATP binding site [chemical binding]; other site 296591006620 Walker B motif; other site 296591006621 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 296591006622 catalytic residues [active] 296591006623 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 296591006624 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 296591006625 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 296591006626 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 296591006627 HI0933-like protein; Region: HI0933_like; pfam03486 296591006628 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591006629 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14951 296591006630 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 296591006631 Walker A motif; other site 296591006632 ATP binding site [chemical binding]; other site 296591006633 Walker B motif; other site 296591006634 arginine finger; other site 296591006635 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 296591006636 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 296591006637 recombination protein RecR; Reviewed; Region: recR; PRK00076 296591006638 RecR protein; Region: RecR; pfam02132 296591006639 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 296591006640 putative active site [active] 296591006641 putative metal-binding site [ion binding]; other site 296591006642 tetramer interface [polypeptide binding]; other site 296591006643 MAPEG family; Region: MAPEG; cl09190 296591006644 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 296591006645 NMT1-like family; Region: NMT1_2; cl15260 296591006646 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 296591006647 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 296591006648 Walker A/P-loop; other site 296591006649 ATP binding site [chemical binding]; other site 296591006650 Q-loop/lid; other site 296591006651 ABC transporter signature motif; other site 296591006652 Walker B; other site 296591006653 D-loop; other site 296591006654 H-loop/switch region; other site 296591006655 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 296591006656 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 296591006657 dimer interface [polypeptide binding]; other site 296591006658 conserved gate region; other site 296591006659 putative PBP binding loops; other site 296591006660 ABC-ATPase subunit interface; other site 296591006661 NMT1-like family; Region: NMT1_2; cl15260 296591006662 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 296591006663 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 296591006664 N-acetyl-D-glucosamine binding site [chemical binding]; other site 296591006665 catalytic residue [active] 296591006666 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 296591006667 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 296591006668 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591006669 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 296591006670 RNA/DNA hybrid binding site [nucleotide binding]; other site 296591006671 active site 296591006672 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 296591006673 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 296591006674 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 296591006675 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 296591006676 Ubiquitin-like proteins; Region: UBQ; cl00155 296591006677 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 296591006678 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 296591006679 dimer interface [polypeptide binding]; other site 296591006680 putative functional site; other site 296591006681 putative MPT binding site; other site 296591006682 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 296591006683 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 296591006684 GTP binding site; other site 296591006685 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 296591006686 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 296591006687 FeS/SAM binding site; other site 296591006688 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 296591006689 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591006690 NAD(P) binding site [chemical binding]; other site 296591006691 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591006692 active site 296591006693 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591006694 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 296591006695 NAD(P) binding site [chemical binding]; other site 296591006696 catalytic residues [active] 296591006697 catalytic residues [active] 296591006698 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 296591006699 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591006700 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591006701 NMT1-like family; Region: NMT1_2; cl15260 296591006702 NMT1-like family; Region: NMT1_2; cl15260 296591006703 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591006704 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591006705 DNA-binding site [nucleotide binding]; DNA binding site 296591006706 FCD domain; Region: FCD; cl11656 296591006707 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 296591006708 Dehydratase family; Region: ILVD_EDD; cl00340 296591006709 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 296591006710 dimer interface [polypeptide binding]; other site 296591006711 NADP binding site [chemical binding]; other site 296591006712 catalytic residues [active] 296591006713 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 296591006714 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 296591006715 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 296591006716 dimer interface [polypeptide binding]; other site 296591006717 substrate binding site [chemical binding]; other site 296591006718 metal binding sites [ion binding]; metal-binding site 296591006719 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 296591006720 dimerization interface [polypeptide binding]; other site 296591006721 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 296591006722 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 296591006723 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 296591006724 Phasin protein; Region: Phasin_2; cl11491 296591006725 Low affinity iron permease; Region: Iron_permease; cl12096 296591006726 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 296591006727 Protein of unknown function, DUF482; Region: DUF482; pfam04339 296591006728 NAD synthetase; Provisional; Region: PRK13981 296591006729 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 296591006730 multimer interface [polypeptide binding]; other site 296591006731 active site 296591006732 catalytic triad [active] 296591006733 protein interface 1 [polypeptide binding]; other site 296591006734 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 296591006735 homodimer interface [polypeptide binding]; other site 296591006736 NAD binding pocket [chemical binding]; other site 296591006737 ATP binding pocket [chemical binding]; other site 296591006738 Mg binding site [ion binding]; other site 296591006739 active-site loop [active] 296591006740 Nitrogen regulatory protein P-II; Region: P-II; cl00412 296591006741 Nitrogen regulatory protein P-II; Region: P-II; smart00938 296591006742 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 296591006743 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 296591006744 RDD family; Region: RDD; cl00746 296591006745 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 296591006746 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 296591006747 RNA polymerase factor sigma-70; Validated; Region: PRK09047 296591006748 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 296591006749 DNA binding residues [nucleotide binding] 296591006750 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 296591006751 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 296591006752 PYR/PP interface [polypeptide binding]; other site 296591006753 dimer interface [polypeptide binding]; other site 296591006754 TPP binding site [chemical binding]; other site 296591006755 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 296591006756 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 296591006757 TPP-binding site [chemical binding]; other site 296591006758 dimer interface [polypeptide binding]; other site 296591006759 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 296591006760 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 296591006761 putative valine binding site [chemical binding]; other site 296591006762 dimer interface [polypeptide binding]; other site 296591006763 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 296591006764 ketol-acid reductoisomerase; Provisional; Region: PRK05479 296591006765 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591006766 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 296591006767 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 296591006768 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 296591006769 2-isopropylmalate synthase; Validated; Region: PRK03739 296591006770 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 296591006771 active site 296591006772 catalytic residues [active] 296591006773 metal binding site [ion binding]; metal-binding site 296591006774 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 296591006775 2-isopropylmalate synthase; Validated; Region: PRK00915 296591006776 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 296591006777 active site 296591006778 catalytic residues [active] 296591006779 metal binding site [ion binding]; metal-binding site 296591006780 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 296591006781 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 296591006782 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 296591006783 Transcriptional regulator [Transcription]; Region: IclR; COG1414 296591006784 Helix-turn-helix domains; Region: HTH; cl00088 296591006785 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591006786 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 296591006787 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 296591006788 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 296591006789 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 296591006790 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; cl11574 296591006791 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 296591006792 Transglycosylase; Region: Transgly; cl07896 296591006793 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 296591006794 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 296591006795 SPW repeat; Region: SPW; pfam03779 296591006796 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 296591006797 dimer interface [polypeptide binding]; other site 296591006798 substrate binding site [chemical binding]; other site 296591006799 ATP binding site [chemical binding]; other site 296591006800 Sodium:solute symporter family; Region: SSF; cl00456 296591006801 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 296591006802 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591006803 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591006804 Ferredoxin [Energy production and conversion]; Region: COG1146 296591006805 4Fe-4S binding domain; Region: Fer4; cl02805 296591006806 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 296591006807 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 296591006808 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591006809 G1 box; other site 296591006810 GTP/Mg2+ binding site [chemical binding]; other site 296591006811 G2 box; other site 296591006812 Switch I region; other site 296591006813 G3 box; other site 296591006814 Switch II region; other site 296591006815 G4 box; other site 296591006816 G5 box; other site 296591006817 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 296591006818 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 296591006819 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 296591006820 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 296591006821 Active Sites [active] 296591006822 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 296591006823 Active Sites [active] 296591006824 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 296591006825 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 296591006826 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 296591006827 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 296591006828 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 296591006829 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 296591006830 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591006831 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 296591006832 putative ligand binding site [chemical binding]; other site 296591006833 Response regulator receiver domain; Region: Response_reg; pfam00072 296591006834 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 296591006835 active site 296591006836 phosphorylation site [posttranslational modification] 296591006837 intermolecular recognition site; other site 296591006838 dimerization interface [polypeptide binding]; other site 296591006839 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 296591006840 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; cl15754 296591006841 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 296591006842 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 296591006843 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 296591006844 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 296591006845 FMN binding site [chemical binding]; other site 296591006846 active site 296591006847 substrate binding site [chemical binding]; other site 296591006848 catalytic residue [active] 296591006849 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 296591006850 classical (c) SDRs; Region: SDR_c; cd05233 296591006851 NAD(P) binding site [chemical binding]; other site 296591006852 active site 296591006853 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 296591006854 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591006855 NMT1-like family; Region: NMT1_2; cl15260 296591006856 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591006857 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591006858 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 296591006859 active site 296591006860 catalytic residues [active] 296591006861 metal binding site [ion binding]; metal-binding site 296591006862 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591006863 Helix-turn-helix domains; Region: HTH; cl00088 296591006864 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 296591006865 putative dimerization interface [polypeptide binding]; other site 296591006866 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 296591006867 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 296591006868 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 296591006869 ATP binding site [chemical binding]; other site 296591006870 Mg++ binding site [ion binding]; other site 296591006871 motif III; other site 296591006872 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 296591006873 nucleotide binding region [chemical binding]; other site 296591006874 ATP-binding site [chemical binding]; other site 296591006875 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 296591006876 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 296591006877 C-terminal domain interface [polypeptide binding]; other site 296591006878 GSH binding site (G-site) [chemical binding]; other site 296591006879 dimer interface [polypeptide binding]; other site 296591006880 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 296591006881 dimer interface [polypeptide binding]; other site 296591006882 N-terminal domain interface [polypeptide binding]; other site 296591006883 putative substrate binding pocket (H-site) [chemical binding]; other site 296591006884 LysE type translocator; Region: LysE; cl00565 296591006885 OpgC protein; Region: OpgC_C; cl00792 296591006886 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 296591006887 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 296591006888 Walker A/P-loop; other site 296591006889 ATP binding site [chemical binding]; other site 296591006890 Q-loop/lid; other site 296591006891 ABC transporter signature motif; other site 296591006892 Walker B; other site 296591006893 D-loop; other site 296591006894 H-loop/switch region; other site 296591006895 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591006896 NIL domain; Region: NIL; cl09633 296591006897 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 296591006898 dimer interface [polypeptide binding]; other site 296591006899 conserved gate region; other site 296591006900 ABC-ATPase subunit interface; other site 296591006901 NMT1-like family; Region: NMT1_2; cl15260 296591006902 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 296591006903 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 296591006904 putative substrate translocation pore; other site 296591006905 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 296591006906 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 296591006907 LysR family transcriptional regulator; Provisional; Region: PRK14997 296591006908 Helix-turn-helix domains; Region: HTH; cl00088 296591006909 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 296591006910 putative effector binding pocket; other site 296591006911 putative dimerization interface [polypeptide binding]; other site 296591006912 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 296591006913 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 296591006914 dimer interface [polypeptide binding]; other site 296591006915 decamer (pentamer of dimers) interface [polypeptide binding]; other site 296591006916 catalytic triad [active] 296591006917 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591006918 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 296591006919 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 296591006920 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 296591006921 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 296591006922 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 296591006923 dimer interface [polypeptide binding]; other site 296591006924 conserved gate region; other site 296591006925 putative PBP binding loops; other site 296591006926 ABC-ATPase subunit interface; other site 296591006927 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 296591006928 dimer interface [polypeptide binding]; other site 296591006929 conserved gate region; other site 296591006930 putative PBP binding loops; other site 296591006931 ABC-ATPase subunit interface; other site 296591006932 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 296591006933 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 296591006934 Walker A/P-loop; other site 296591006935 ATP binding site [chemical binding]; other site 296591006936 Q-loop/lid; other site 296591006937 ABC transporter signature motif; other site 296591006938 Walker B; other site 296591006939 D-loop; other site 296591006940 H-loop/switch region; other site 296591006941 TOBE-like domain; Region: TOBE_3; pfam12857 296591006942 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591006943 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 296591006944 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 296591006945 dimer interface [polypeptide binding]; other site 296591006946 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 296591006947 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 296591006948 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 296591006949 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 296591006950 Cell division inhibitor SulA; Region: SulA; cl01880 296591006951 DNA Polymerase Y-family; Region: PolY_like; cd03468 296591006952 DNA binding site [nucleotide binding] 296591006953 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 296591006954 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 296591006955 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 296591006956 generic binding surface I; other site 296591006957 generic binding surface II; other site 296591006958 Response regulator receiver domain; Region: Response_reg; pfam00072 296591006959 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 296591006960 active site 296591006961 phosphorylation site [posttranslational modification] 296591006962 intermolecular recognition site; other site 296591006963 dimerization interface [polypeptide binding]; other site 296591006964 PAS domain S-box; Region: sensory_box; TIGR00229 296591006965 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 296591006966 putative active site [active] 296591006967 heme pocket [chemical binding]; other site 296591006968 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 296591006969 dimer interface [polypeptide binding]; other site 296591006970 phosphorylation site [posttranslational modification] 296591006971 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 296591006972 ATP binding site [chemical binding]; other site 296591006973 Mg2+ binding site [ion binding]; other site 296591006974 G-X-G motif; other site 296591006975 Response regulator receiver domain; Region: Response_reg; pfam00072 296591006976 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 296591006977 active site 296591006978 phosphorylation site [posttranslational modification] 296591006979 intermolecular recognition site; other site 296591006980 dimerization interface [polypeptide binding]; other site 296591006981 Erythromycin esterase homolog [General function prediction only]; Region: COG2312 296591006982 Erythromycin esterase; Region: Erythro_esteras; pfam05139 296591006983 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 296591006984 active site 296591006985 LysE type translocator; Region: LysE; cl00565 296591006986 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 296591006987 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 296591006988 Uncharacterized bacterial family of heme peroxidases; Region: An_peroxidase_bacterial_1; cd09819 296591006989 putative heme binding site [chemical binding]; other site 296591006990 putative substrate binding site [chemical binding]; other site 296591006991 N-acetylglutamate synthase; Validated; Region: PRK05279 296591006992 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 296591006993 putative feedback inhibition sensing region; other site 296591006994 putative nucleotide binding site [chemical binding]; other site 296591006995 putative substrate binding site [chemical binding]; other site 296591006996 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591006997 Coenzyme A binding pocket [chemical binding]; other site 296591006998 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 296591006999 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 296591007000 ATP binding site [chemical binding]; other site 296591007001 putative Mg++ binding site [ion binding]; other site 296591007002 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 296591007003 nucleotide binding region [chemical binding]; other site 296591007004 ATP-binding site [chemical binding]; other site 296591007005 Helicase associated domain (HA2); Region: HA2; cl04503 296591007006 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 296591007007 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 296591007008 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 296591007009 NMT1-like family; Region: NMT1_2; cl15260 296591007010 NMT1/THI5 like; Region: NMT1; pfam09084 296591007011 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; cl15306 296591007012 membrane-bound complex binding site; other site 296591007013 hinge residues; other site 296591007014 methionine aminotransferase; Validated; Region: PRK09082 296591007015 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 296591007016 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591007017 homodimer interface [polypeptide binding]; other site 296591007018 catalytic residue [active] 296591007019 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 296591007020 Helix-turn-helix domains; Region: HTH; cl00088 296591007021 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 296591007022 substrate binding site [chemical binding]; other site 296591007023 dimerization interface [polypeptide binding]; other site 296591007024 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 296591007025 putative active site [active] 296591007026 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 296591007027 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 296591007028 multifunctional aminopeptidase A; Provisional; Region: PRK00913 296591007029 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 296591007030 interface (dimer of trimers) [polypeptide binding]; other site 296591007031 Substrate-binding/catalytic site; other site 296591007032 Zn-binding sites [ion binding]; other site 296591007033 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 296591007034 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 296591007035 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 296591007036 dimerization interface [polypeptide binding]; other site 296591007037 ligand binding site [chemical binding]; other site 296591007038 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; cl01467 296591007039 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 296591007040 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 296591007041 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 296591007042 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; cl09944 296591007043 lysine decarboxylase LdcC; Provisional; Region: PRK15399 296591007044 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 296591007045 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591007046 catalytic residue [active] 296591007047 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 296591007048 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 296591007049 DNA binding site [nucleotide binding] 296591007050 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 296591007051 active site 296591007052 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 296591007053 DNA binding site [nucleotide binding] 296591007054 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 296591007055 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 296591007056 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 296591007057 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 296591007058 NAD binding site [chemical binding]; other site 296591007059 homotetramer interface [polypeptide binding]; other site 296591007060 homodimer interface [polypeptide binding]; other site 296591007061 substrate binding site [chemical binding]; other site 296591007062 active site 296591007063 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 296591007064 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 296591007065 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 296591007066 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 296591007067 dimer interface [polypeptide binding]; other site 296591007068 conserved gate region; other site 296591007069 putative PBP binding loops; other site 296591007070 ABC-ATPase subunit interface; other site 296591007071 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 296591007072 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 296591007073 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 296591007074 dimer interface [polypeptide binding]; other site 296591007075 conserved gate region; other site 296591007076 putative PBP binding loops; other site 296591007077 ABC-ATPase subunit interface; other site 296591007078 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 296591007079 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 296591007080 Walker A/P-loop; other site 296591007081 ATP binding site [chemical binding]; other site 296591007082 Q-loop/lid; other site 296591007083 ABC transporter signature motif; other site 296591007084 Walker B; other site 296591007085 D-loop; other site 296591007086 H-loop/switch region; other site 296591007087 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591007088 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 296591007089 Walker A/P-loop; other site 296591007090 ATP binding site [chemical binding]; other site 296591007091 Q-loop/lid; other site 296591007092 ABC transporter signature motif; other site 296591007093 Walker B; other site 296591007094 D-loop; other site 296591007095 H-loop/switch region; other site 296591007096 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591007097 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 296591007098 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 296591007099 Sm1 motif; other site 296591007100 D3 - B interaction site; other site 296591007101 D1 - D2 interaction site; other site 296591007102 Hfq - Hfq interaction site; other site 296591007103 RNA binding pocket [nucleotide binding]; other site 296591007104 Sm2 motif; other site 296591007105 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 296591007106 NusA N-terminal domain; Region: NusA_N; pfam08529 296591007107 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 296591007108 RNA binding site [nucleotide binding]; other site 296591007109 homodimer interface [polypeptide binding]; other site 296591007110 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 296591007111 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 296591007112 G-X-X-G motif; other site 296591007113 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 296591007114 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 296591007115 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 296591007116 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 296591007117 translation initiation factor IF-2; Region: IF-2; TIGR00487 296591007118 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 296591007119 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 296591007120 G1 box; other site 296591007121 putative GEF interaction site [polypeptide binding]; other site 296591007122 GTP/Mg2+ binding site [chemical binding]; other site 296591007123 Switch I region; other site 296591007124 G2 box; other site 296591007125 G3 box; other site 296591007126 Switch II region; other site 296591007127 G4 box; other site 296591007128 G5 box; other site 296591007129 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 296591007130 Translation-initiation factor 2; Region: IF-2; pfam11987 296591007131 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 296591007132 Ribosome-binding factor A; Region: RBFA; cl00542 296591007133 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 296591007134 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 296591007135 RNA binding site [nucleotide binding]; other site 296591007136 active site 296591007137 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 296591007138 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 296591007139 G1 box; other site 296591007140 putative GEF interaction site [polypeptide binding]; other site 296591007141 GTP/Mg2+ binding site [chemical binding]; other site 296591007142 Switch I region; other site 296591007143 G2 box; other site 296591007144 G3 box; other site 296591007145 Switch II region; other site 296591007146 G4 box; other site 296591007147 G5 box; other site 296591007148 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 296591007149 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 296591007150 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 296591007151 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 296591007152 substrate binding site [chemical binding]; other site 296591007153 oxyanion hole (OAH) forming residues; other site 296591007154 trimer interface [polypeptide binding]; other site 296591007155 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 296591007156 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 296591007157 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 296591007158 active site 296591007159 phosphorylation site [posttranslational modification] 296591007160 intermolecular recognition site; other site 296591007161 dimerization interface [polypeptide binding]; other site 296591007162 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 296591007163 DNA binding residues [nucleotide binding] 296591007164 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 296591007165 SmpB-tmRNA interface; other site 296591007166 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 296591007167 putative coenzyme Q binding site [chemical binding]; other site 296591007168 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 296591007169 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 296591007170 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 296591007171 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 296591007172 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 296591007173 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 296591007174 active site 296591007175 GMP synthase; Reviewed; Region: guaA; PRK00074 296591007176 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 296591007177 AMP/PPi binding site [chemical binding]; other site 296591007178 candidate oxyanion hole; other site 296591007179 catalytic triad [active] 296591007180 potential glutamine specificity residues [chemical binding]; other site 296591007181 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 296591007182 ATP Binding subdomain [chemical binding]; other site 296591007183 Ligand Binding sites [chemical binding]; other site 296591007184 Dimerization subdomain; other site 296591007185 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 296591007186 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 296591007187 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591007188 Helix-turn-helix domains; Region: HTH; cl00088 296591007189 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 296591007190 putative dimerization interface [polypeptide binding]; other site 296591007191 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 296591007192 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 296591007193 nucleoside/Zn binding site; other site 296591007194 dimer interface [polypeptide binding]; other site 296591007195 catalytic motif [active] 296591007196 haloalkane dehalogenase; Provisional; Region: PRK00870 296591007197 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 296591007198 dimer interface [polypeptide binding]; other site 296591007199 catalytic triad [active] 296591007200 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 296591007201 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591007202 NAD binding site [chemical binding]; other site 296591007203 catalytic residues [active] 296591007204 cyclase homology domain; Region: CHD; cd07302 296591007205 nucleotidyl binding site; other site 296591007206 metal binding site [ion binding]; metal-binding site 296591007207 dimer interface [polypeptide binding]; other site 296591007208 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 296591007209 phosphopeptide binding site; other site 296591007210 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 296591007211 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 296591007212 active site 296591007213 hydroperoxidase II; Provisional; Region: katE; PRK11249 296591007214 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 296591007215 tetramer interface [polypeptide binding]; other site 296591007216 heme binding pocket [chemical binding]; other site 296591007217 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 296591007218 domain interactions; other site 296591007219 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 296591007220 Response regulator receiver domain; Region: Response_reg; pfam00072 296591007221 active site 296591007222 phosphorylation site [posttranslational modification] 296591007223 intermolecular recognition site; other site 296591007224 dimerization interface [polypeptide binding]; other site 296591007225 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 296591007226 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 296591007227 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591007228 Tetratricopeptide repeat; Region: TPR_16; pfam13432 296591007229 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 296591007230 binding surface 296591007231 Tetratricopeptide repeat; Region: TPR_16; pfam13432 296591007232 TPR motif; other site 296591007233 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 296591007234 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 296591007235 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 296591007236 N-terminal plug; other site 296591007237 ligand-binding site [chemical binding]; other site 296591007238 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 296591007239 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 296591007240 dimerization interface [polypeptide binding]; other site 296591007241 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 296591007242 dimer interface [polypeptide binding]; other site 296591007243 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 296591007244 putative CheW interface [polypeptide binding]; other site 296591007245 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 296591007246 CHASE3 domain; Region: CHASE3; cl05000 296591007247 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 296591007248 dimerization interface [polypeptide binding]; other site 296591007249 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 296591007250 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 296591007251 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 296591007252 dimer interface [polypeptide binding]; other site 296591007253 putative CheW interface [polypeptide binding]; other site 296591007254 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 296591007255 dimerization interface [polypeptide binding]; other site 296591007256 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 296591007257 dimer interface [polypeptide binding]; other site 296591007258 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 296591007259 putative CheW interface [polypeptide binding]; other site 296591007260 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 296591007261 putative binding surface; other site 296591007262 active site 296591007263 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 296591007264 ATP binding site [chemical binding]; other site 296591007265 Mg2+ binding site [ion binding]; other site 296591007266 G-X-G motif; other site 296591007267 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 296591007268 Response regulator receiver domain; Region: Response_reg; pfam00072 296591007269 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 296591007270 active site 296591007271 phosphorylation site [posttranslational modification] 296591007272 intermolecular recognition site; other site 296591007273 dimerization interface [polypeptide binding]; other site 296591007274 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 296591007275 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 296591007276 active site 296591007277 phosphorylation site [posttranslational modification] 296591007278 intermolecular recognition site; other site 296591007279 dimerization interface [polypeptide binding]; other site 296591007280 CheB methylesterase; Region: CheB_methylest; pfam01339 296591007281 Response regulator receiver domain; Region: Response_reg; pfam00072 296591007282 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 296591007283 active site 296591007284 phosphorylation site [posttranslational modification] 296591007285 intermolecular recognition site; other site 296591007286 dimerization interface [polypeptide binding]; other site 296591007287 PAS fold; Region: PAS_4; pfam08448 296591007288 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 296591007289 putative active site [active] 296591007290 heme pocket [chemical binding]; other site 296591007291 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 296591007292 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 296591007293 putative active site [active] 296591007294 heme pocket [chemical binding]; other site 296591007295 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 296591007296 dimer interface [polypeptide binding]; other site 296591007297 phosphorylation site [posttranslational modification] 296591007298 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 296591007299 ATP binding site [chemical binding]; other site 296591007300 Mg2+ binding site [ion binding]; other site 296591007301 G-X-G motif; other site 296591007302 Response regulator receiver domain; Region: Response_reg; pfam00072 296591007303 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 296591007304 active site 296591007305 phosphorylation site [posttranslational modification] 296591007306 intermolecular recognition site; other site 296591007307 dimerization interface [polypeptide binding]; other site 296591007308 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 296591007309 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 296591007310 Response regulator receiver domain; Region: Response_reg; pfam00072 296591007311 active site 296591007312 phosphorylation site [posttranslational modification] 296591007313 intermolecular recognition site; other site 296591007314 dimerization interface [polypeptide binding]; other site 296591007315 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 296591007316 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 296591007317 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 296591007318 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591007319 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 296591007320 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 296591007321 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 296591007322 substrate binding site [chemical binding]; other site 296591007323 oxyanion hole (OAH) forming residues; other site 296591007324 trimer interface [polypeptide binding]; other site 296591007325 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 296591007326 enoyl-CoA hydratase; Provisional; Region: PRK09076 296591007327 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 296591007328 substrate binding site [chemical binding]; other site 296591007329 oxyanion hole (OAH) forming residues; other site 296591007330 trimer interface [polypeptide binding]; other site 296591007331 HTH-like domain; Region: HTH_21; pfam13276 296591007332 Integrase core domain; Region: rve; cl01316 296591007333 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591007334 NMT1-like family; Region: NMT1_2; cl15260 296591007335 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591007336 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591007337 active site 296591007338 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 296591007339 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 296591007340 NADP binding site [chemical binding]; other site 296591007341 dimer interface [polypeptide binding]; other site 296591007342 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591007343 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591007344 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 296591007345 Helix-turn-helix domains; Region: HTH; cl00088 296591007346 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 296591007347 dimerization interface [polypeptide binding]; other site 296591007348 substrate binding pocket [chemical binding]; other site 296591007349 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 296591007350 Helix-turn-helix domains; Region: HTH; cl00088 296591007351 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 296591007352 dimerization interface [polypeptide binding]; other site 296591007353 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 296591007354 FAD binding domain; Region: FAD_binding_4; pfam01565 296591007355 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591007356 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591007357 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591007358 NMT1-like family; Region: NMT1_2; cl15260 296591007359 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 296591007360 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 296591007361 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 296591007362 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 296591007363 putative sialic acid transporter; Provisional; Region: PRK03893 296591007364 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 296591007365 putative homotetramer interface [polypeptide binding]; other site 296591007366 putative homodimer interface [polypeptide binding]; other site 296591007367 putative metal binding site [ion binding]; other site 296591007368 putative homodimer-homodimer interface [polypeptide binding]; other site 296591007369 putative allosteric switch controlling residues; other site 296591007370 H+ Antiporter protein; Region: 2A0121; TIGR00900 296591007371 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 296591007372 putative substrate translocation pore; other site 296591007373 High-affinity nickel-transport protein; Region: NicO; cl00964 296591007374 High-affinity nickel-transport protein; Region: NicO; cl00964 296591007375 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 296591007376 Domain of unknown function (DUF336); Region: DUF336; cl01249 296591007377 Helix-turn-helix domains; Region: HTH; cl00088 296591007378 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 296591007379 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 296591007380 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 296591007381 dimer interface [polypeptide binding]; other site 296591007382 conserved gate region; other site 296591007383 putative PBP binding loops; other site 296591007384 ABC-ATPase subunit interface; other site 296591007385 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 296591007386 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591007387 Walker A/P-loop; other site 296591007388 ATP binding site [chemical binding]; other site 296591007389 Q-loop/lid; other site 296591007390 ABC transporter signature motif; other site 296591007391 Walker B; other site 296591007392 D-loop; other site 296591007393 H-loop/switch region; other site 296591007394 TOBE domain; Region: TOBE_2; cl01440 296591007395 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; cl00102 296591007396 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 296591007397 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 296591007398 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 296591007399 active site residue [active] 296591007400 Chromate transporter; Region: Chromate_transp; pfam02417 296591007401 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 296591007402 Chromate transporter; Region: Chromate_transp; pfam02417 296591007403 HupE / UreJ protein; Region: HupE_UreJ; cl01011 296591007404 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 296591007405 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 296591007406 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 296591007407 DNA binding site [nucleotide binding] 296591007408 dimer interface [polypeptide binding]; other site 296591007409 Int/Topo IB signature motif; other site 296591007410 active site 296591007411 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 296591007412 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 296591007413 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591007414 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 296591007415 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 296591007416 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 296591007417 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 296591007418 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 296591007419 active site 296591007420 PilZ domain; Region: PilZ; cl01260 296591007421 DNA polymerase III subunit delta'; Validated; Region: PRK06964 296591007422 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591007423 thymidylate kinase; Validated; Region: tmk; PRK00698 296591007424 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 296591007425 TMP-binding site; other site 296591007426 ATP-binding site [chemical binding]; other site 296591007427 YceG-like family; Region: YceG; pfam02618 296591007428 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 296591007429 dimerization interface [polypeptide binding]; other site 296591007430 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 296591007431 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 296591007432 NRDE protein; Region: NRDE; cl01315 296591007433 O-Antigen ligase; Region: Wzy_C; cl04850 296591007434 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 296591007435 binding surface 296591007436 TPR motif; other site 296591007437 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 296591007438 active site 296591007439 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591007440 Coenzyme A binding pocket [chemical binding]; other site 296591007441 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591007442 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 296591007443 substrate binding pocket [chemical binding]; other site 296591007444 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 296591007445 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 296591007446 putative active site [active] 296591007447 metal binding site [ion binding]; metal-binding site 296591007448 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 296591007449 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 296591007450 metal binding site [ion binding]; metal-binding site 296591007451 putative dimer interface [polypeptide binding]; other site 296591007452 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 296591007453 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 296591007454 Walker A/P-loop; other site 296591007455 ATP binding site [chemical binding]; other site 296591007456 Q-loop/lid; other site 296591007457 ABC transporter signature motif; other site 296591007458 Walker B; other site 296591007459 D-loop; other site 296591007460 H-loop/switch region; other site 296591007461 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591007462 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 296591007463 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 296591007464 Walker A/P-loop; other site 296591007465 ATP binding site [chemical binding]; other site 296591007466 Q-loop/lid; other site 296591007467 ABC transporter signature motif; other site 296591007468 Walker B; other site 296591007469 D-loop; other site 296591007470 H-loop/switch region; other site 296591007471 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591007472 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 296591007473 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 296591007474 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 296591007475 dimer interface [polypeptide binding]; other site 296591007476 conserved gate region; other site 296591007477 putative PBP binding loops; other site 296591007478 ABC-ATPase subunit interface; other site 296591007479 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 296591007480 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 296591007481 dimer interface [polypeptide binding]; other site 296591007482 conserved gate region; other site 296591007483 putative PBP binding loops; other site 296591007484 ABC-ATPase subunit interface; other site 296591007485 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 296591007486 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 296591007487 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 296591007488 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 296591007489 metal binding site [ion binding]; metal-binding site 296591007490 putative dimer interface [polypeptide binding]; other site 296591007491 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; cl15754 296591007492 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 296591007493 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 296591007494 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 296591007495 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 296591007496 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 296591007497 RNA binding site [nucleotide binding]; other site 296591007498 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 296591007499 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 296591007500 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 296591007501 Histidine kinase; Region: HisKA_3; pfam07730 296591007502 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 296591007503 ATP binding site [chemical binding]; other site 296591007504 Mg2+ binding site [ion binding]; other site 296591007505 G-X-G motif; other site 296591007506 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 296591007507 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 296591007508 active site 296591007509 phosphorylation site [posttranslational modification] 296591007510 intermolecular recognition site; other site 296591007511 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 296591007512 DNA binding residues [nucleotide binding] 296591007513 dimerization interface [polypeptide binding]; other site 296591007514 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 296591007515 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 296591007516 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591007517 SAF domain; Region: SAF; cl00555 296591007518 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 296591007519 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 296591007520 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 296591007521 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 296591007522 TadE-like protein; Region: TadE; cl10688 296591007523 TadE-like protein; Region: TadE; cl10688 296591007524 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 296591007525 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 296591007526 active site 296591007527 phosphorylation site [posttranslational modification] 296591007528 intermolecular recognition site; other site 296591007529 dimerization interface [polypeptide binding]; other site 296591007530 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 296591007531 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 296591007532 Type II/IV secretion system protein; Region: T2SE; pfam00437 296591007533 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 296591007534 ATP binding site [chemical binding]; other site 296591007535 Walker A motif; other site 296591007536 hexamer interface [polypeptide binding]; other site 296591007537 Walker B motif; other site 296591007538 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 296591007539 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 296591007540 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 296591007541 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 296591007542 binding surface 296591007543 Tetratricopeptide repeat; Region: TPR_16; pfam13432 296591007544 TPR motif; other site 296591007545 Tetratricopeptide repeat; Region: TPR_16; pfam13432 296591007546 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 296591007547 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 296591007548 dimerization domain [polypeptide binding]; other site 296591007549 dimer interface [polypeptide binding]; other site 296591007550 catalytic residues [active] 296591007551 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 296591007552 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 296591007553 DNA binding site [nucleotide binding] 296591007554 active site 296591007555 hypothetical protein; Provisional; Region: PRK06194 296591007556 classical (c) SDRs; Region: SDR_c; cd05233 296591007557 NAD(P) binding site [chemical binding]; other site 296591007558 active site 296591007559 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 296591007560 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 296591007561 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 296591007562 C-terminal domain interface [polypeptide binding]; other site 296591007563 GSH binding site (G-site) [chemical binding]; other site 296591007564 dimer interface [polypeptide binding]; other site 296591007565 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 296591007566 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591007567 active site 296591007568 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 296591007569 Prostaglandin dehydrogenases; Region: PGDH; cd05288 296591007570 NAD(P) binding site [chemical binding]; other site 296591007571 substrate binding site [chemical binding]; other site 296591007572 dimer interface [polypeptide binding]; other site 296591007573 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 296591007574 CoenzymeA binding site [chemical binding]; other site 296591007575 subunit interaction site [polypeptide binding]; other site 296591007576 PHB binding site; other site 296591007577 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 296591007578 classical (c) SDRs; Region: SDR_c; cd05233 296591007579 NAD(P) binding site [chemical binding]; other site 296591007580 active site 296591007581 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 296591007582 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 296591007583 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591007584 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591007585 active site 296591007586 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 296591007587 High-affinity nickel-transport protein; Region: NicO; cl00964 296591007588 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 296591007589 PHB binding site; other site 296591007590 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 296591007591 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 296591007592 dimer interface [polypeptide binding]; other site 296591007593 active site 296591007594 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 296591007595 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 296591007596 substrate binding site [chemical binding]; other site 296591007597 oxyanion hole (OAH) forming residues; other site 296591007598 trimer interface [polypeptide binding]; other site 296591007599 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591007600 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 296591007601 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 296591007602 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591007603 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 296591007604 Walker A/P-loop; other site 296591007605 ATP binding site [chemical binding]; other site 296591007606 Q-loop/lid; other site 296591007607 ABC transporter signature motif; other site 296591007608 Walker B; other site 296591007609 D-loop; other site 296591007610 H-loop/switch region; other site 296591007611 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591007612 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 296591007613 Walker A/P-loop; other site 296591007614 ATP binding site [chemical binding]; other site 296591007615 Q-loop/lid; other site 296591007616 ABC transporter signature motif; other site 296591007617 Walker B; other site 296591007618 D-loop; other site 296591007619 H-loop/switch region; other site 296591007620 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 296591007621 TM-ABC transporter signature motif; other site 296591007622 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 296591007623 TM-ABC transporter signature motif; other site 296591007624 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591007625 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 296591007626 putative ligand binding site [chemical binding]; other site 296591007627 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 296591007628 AMP-binding enzyme; Region: AMP-binding; cl15778 296591007629 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591007630 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 296591007631 ligand binding site [chemical binding]; other site 296591007632 flexible hinge region; other site 296591007633 Helix-turn-helix domains; Region: HTH; cl00088 296591007634 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 296591007635 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 296591007636 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 296591007637 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 296591007638 Intracellular septation protein A; Region: IspA; cl01098 296591007639 BolA-like protein; Region: BolA; cl00386 296591007640 SurA N-terminal domain; Region: SurA_N_3; cl07813 296591007641 PPIC-type PPIASE domain; Region: Rotamase; cl08278 296591007642 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 296591007643 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 296591007644 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 296591007645 dimerization interface [polypeptide binding]; other site 296591007646 ATP binding site [chemical binding]; other site 296591007647 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 296591007648 dimerization interface [polypeptide binding]; other site 296591007649 ATP binding site [chemical binding]; other site 296591007650 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 296591007651 putative active site [active] 296591007652 catalytic triad [active] 296591007653 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 296591007654 active site 296591007655 PII uridylyl-transferase; Provisional; Region: PRK03059 296591007656 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 296591007657 metal binding triad; other site 296591007658 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 296591007659 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 296591007660 Zn2+ binding site [ion binding]; other site 296591007661 Mg2+ binding site [ion binding]; other site 296591007662 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 296591007663 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 296591007664 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 296591007665 S-adenosylmethionine binding site [chemical binding]; other site 296591007666 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 296591007667 active site 296591007668 catalytic residues [active] 296591007669 metal binding site [ion binding]; metal-binding site 296591007670 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 296591007671 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 296591007672 nucleotide binding pocket [chemical binding]; other site 296591007673 K-X-D-G motif; other site 296591007674 catalytic site [active] 296591007675 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 296591007676 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 296591007677 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 296591007678 Dimer interface [polypeptide binding]; other site 296591007679 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 296591007680 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 296591007681 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 296591007682 Walker A/P-loop; other site 296591007683 ATP binding site [chemical binding]; other site 296591007684 Q-loop/lid; other site 296591007685 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 296591007686 ABC transporter signature motif; other site 296591007687 Walker B; other site 296591007688 D-loop; other site 296591007689 H-loop/switch region; other site 296591007690 cystathionine beta-lyase; Provisional; Region: PRK07050 296591007691 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 296591007692 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591007693 catalytic residue [active] 296591007694 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 296591007695 active site 296591007696 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 296591007697 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 296591007698 GDP-binding site [chemical binding]; other site 296591007699 ACT binding site; other site 296591007700 IMP binding site; other site 296591007701 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 296591007702 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 296591007703 dimer interface [polypeptide binding]; other site 296591007704 motif 1; other site 296591007705 active site 296591007706 motif 2; other site 296591007707 motif 3; other site 296591007708 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 296591007709 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 296591007710 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 296591007711 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 296591007712 HflK protein; Region: hflK; TIGR01933 296591007713 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 296591007714 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 296591007715 HflX GTPase family; Region: HflX; cd01878 296591007716 G1 box; other site 296591007717 GTP/Mg2+ binding site [chemical binding]; other site 296591007718 Switch I region; other site 296591007719 G2 box; other site 296591007720 G3 box; other site 296591007721 Switch II region; other site 296591007722 G4 box; other site 296591007723 G5 box; other site 296591007724 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 296591007725 Sm1 motif; other site 296591007726 intra - hexamer interaction site; other site 296591007727 inter - hexamer interaction site [polypeptide binding]; other site 296591007728 nucleotide binding pocket [chemical binding]; other site 296591007729 Sm2 motif; other site 296591007730 GTP-binding protein Der; Reviewed; Region: PRK00093 296591007731 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 296591007732 G1 box; other site 296591007733 GTP/Mg2+ binding site [chemical binding]; other site 296591007734 Switch I region; other site 296591007735 G2 box; other site 296591007736 Switch II region; other site 296591007737 G3 box; other site 296591007738 G4 box; other site 296591007739 G5 box; other site 296591007740 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 296591007741 G1 box; other site 296591007742 GTP/Mg2+ binding site [chemical binding]; other site 296591007743 Switch I region; other site 296591007744 G2 box; other site 296591007745 G3 box; other site 296591007746 Switch II region; other site 296591007747 G4 box; other site 296591007748 G5 box; other site 296591007749 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 296591007750 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 296591007751 Trp docking motif [polypeptide binding]; other site 296591007752 active site 296591007753 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 296591007754 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 296591007755 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 296591007756 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 296591007757 dimer interface [polypeptide binding]; other site 296591007758 motif 1; other site 296591007759 active site 296591007760 motif 2; other site 296591007761 motif 3; other site 296591007762 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 296591007763 anticodon binding site; other site 296591007764 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 296591007765 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 296591007766 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 296591007767 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 296591007768 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 296591007769 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 296591007770 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 296591007771 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 296591007772 TPR motif; other site 296591007773 binding surface 296591007774 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 296591007775 binding surface 296591007776 TPR motif; other site 296591007777 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 296591007778 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 296591007779 active site 296591007780 multimer interface [polypeptide binding]; other site 296591007781 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 296591007782 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 296591007783 RNA binding surface [nucleotide binding]; other site 296591007784 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 296591007785 active site 296591007786 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 296591007787 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 296591007788 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 296591007789 RNA binding surface [nucleotide binding]; other site 296591007790 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 296591007791 active site 296591007792 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 296591007793 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 296591007794 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591007795 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591007796 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 296591007797 active site 296591007798 Predicted ATPase [General function prediction only]; Region: COG1485 296591007799 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 296591007800 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591007801 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 296591007802 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 296591007803 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 296591007804 E3 interaction surface; other site 296591007805 lipoyl attachment site [posttranslational modification]; other site 296591007806 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 296591007807 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 296591007808 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 296591007809 TPP-binding site [chemical binding]; other site 296591007810 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 296591007811 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 296591007812 active site 296591007813 metal binding site [ion binding]; metal-binding site 296591007814 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 296591007815 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 296591007816 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 296591007817 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 296591007818 Cytochrome c; Region: Cytochrom_C; cl11414 296591007819 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 296591007820 Moco binding site; other site 296591007821 metal coordination site [ion binding]; other site 296591007822 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 296591007823 dimerization interface [polypeptide binding]; other site 296591007824 putative DNA binding site [nucleotide binding]; other site 296591007825 putative Zn2+ binding site [ion binding]; other site 296591007826 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 296591007827 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 296591007828 AMP-binding enzyme; Region: AMP-binding; cl15778 296591007829 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591007830 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 296591007831 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 296591007832 NADP binding site [chemical binding]; other site 296591007833 dimer interface [polypeptide binding]; other site 296591007834 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 296591007835 AAA domain; Region: AAA_22; pfam13401 296591007836 ChaP, an enzyme involved in the biosynthesis of the antitumor agent chartreusin (cha); and similar proteins; Region: ChaP_like; cd08351 296591007837 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591007838 metal binding site [ion binding]; metal-binding site 296591007839 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 296591007840 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 296591007841 S-adenosylmethionine binding site [chemical binding]; other site 296591007842 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 296591007843 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 296591007844 ChaP, an enzyme involved in the biosynthesis of the antitumor agent chartreusin (cha); and similar proteins; Region: ChaP_like; cd08351 296591007845 metal binding site [ion binding]; metal-binding site 296591007846 Methyltransferase domain; Region: Methyltransf_31; pfam13847 296591007847 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 296591007848 S-adenosylmethionine binding site [chemical binding]; other site 296591007849 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 296591007850 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591007851 substrate binding pocket [chemical binding]; other site 296591007852 membrane-bound complex binding site; other site 296591007853 hinge residues; other site 296591007854 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 296591007855 Isochorismatase family; Region: Isochorismatase; pfam00857 296591007856 catalytic triad [active] 296591007857 dimer interface [polypeptide binding]; other site 296591007858 conserved cis-peptide bond; other site 296591007859 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 296591007860 HipA N-terminal domain; Region: Couple_hipA; cl11853 296591007861 HipA-like N-terminal domain; Region: HipA_N; pfam07805 296591007862 HipA-like C-terminal domain; Region: HipA_C; pfam07804 296591007863 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 296591007864 putative chaperone; Provisional; Region: PRK11678 296591007865 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 296591007866 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 296591007867 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591007868 Helix-turn-helix domains; Region: HTH; cl00088 296591007869 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 296591007870 mce related protein; Region: MCE; pfam02470 296591007871 Permease; Region: Permease; cl00510 296591007872 LysE type translocator; Region: LysE; cl00565 296591007873 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 296591007874 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591007875 DNA-binding site [nucleotide binding]; DNA binding site 296591007876 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 296591007877 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591007878 homodimer interface [polypeptide binding]; other site 296591007879 catalytic residue [active] 296591007880 LysE type translocator; Region: LysE; cl00565 296591007881 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 296591007882 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 296591007883 homotrimer interaction site [polypeptide binding]; other site 296591007884 putative active site [active] 296591007885 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 296591007886 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 296591007887 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 296591007888 NlpC/P60 family; Region: NLPC_P60; cl11438 296591007889 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591007890 NMT1-like family; Region: NMT1_2; cl15260 296591007891 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 296591007892 E3 interaction surface; other site 296591007893 lipoyl attachment site [posttranslational modification]; other site 296591007894 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591007895 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 296591007896 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 296591007897 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 296591007898 active site 296591007899 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 296591007900 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 296591007901 E3 interaction surface; other site 296591007902 lipoyl attachment site [posttranslational modification]; other site 296591007903 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 296591007904 E3 interaction surface; other site 296591007905 lipoyl attachment site [posttranslational modification]; other site 296591007906 e3 binding domain; Region: E3_binding; pfam02817 296591007907 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 296591007908 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 296591007909 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 296591007910 dimer interface [polypeptide binding]; other site 296591007911 TPP-binding site [chemical binding]; other site 296591007912 PAS domain S-box; Region: sensory_box; TIGR00229 296591007913 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 296591007914 putative active site [active] 296591007915 heme pocket [chemical binding]; other site 296591007916 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 296591007917 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 296591007918 dimer interface [polypeptide binding]; other site 296591007919 phosphorylation site [posttranslational modification] 296591007920 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 296591007921 ATP binding site [chemical binding]; other site 296591007922 Mg2+ binding site [ion binding]; other site 296591007923 G-X-G motif; other site 296591007924 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 296591007925 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 296591007926 active site 296591007927 phosphorylation site [posttranslational modification] 296591007928 intermolecular recognition site; other site 296591007929 dimerization interface [polypeptide binding]; other site 296591007930 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 296591007931 DNA binding residues [nucleotide binding] 296591007932 dimerization interface [polypeptide binding]; other site 296591007933 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 296591007934 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 296591007935 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 296591007936 homodimer interface [polypeptide binding]; other site 296591007937 NADP binding site [chemical binding]; other site 296591007938 substrate binding site [chemical binding]; other site 296591007939 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 296591007940 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 296591007941 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 296591007942 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 296591007943 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 296591007944 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 296591007945 ATP-grasp domain; Region: ATP-grasp_4; cl03087 296591007946 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 296591007947 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 296591007948 ATP-grasp domain; Region: ATP-grasp_4; cl03087 296591007949 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 296591007950 IMP binding site; other site 296591007951 dimer interface [polypeptide binding]; other site 296591007952 interdomain contacts; other site 296591007953 partial ornithine binding site; other site 296591007954 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 296591007955 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 296591007956 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 296591007957 catalytic site [active] 296591007958 subunit interface [polypeptide binding]; other site 296591007959 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 296591007960 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 296591007961 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 296591007962 RNA/DNA hybrid binding site [nucleotide binding]; other site 296591007963 active site 296591007964 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 296591007965 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 296591007966 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 296591007967 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 296591007968 active site 296591007969 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 296591007970 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 296591007971 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 296591007972 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 296591007973 trimer interface [polypeptide binding]; other site 296591007974 active site 296591007975 UDP-GlcNAc binding site [chemical binding]; other site 296591007976 lipid binding site [chemical binding]; lipid-binding site 296591007977 periplasmic chaperone; Provisional; Region: PRK10780 296591007978 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 296591007979 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 296591007980 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 296591007981 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 296591007982 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 296591007983 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 296591007984 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 296591007985 Surface antigen; Region: Bac_surface_Ag; cl03097 296591007986 zinc metallopeptidase RseP; Provisional; Region: PRK10779 296591007987 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 296591007988 active site 296591007989 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 296591007990 protein binding site [polypeptide binding]; other site 296591007991 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 296591007992 putative substrate binding region [chemical binding]; other site 296591007993 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 296591007994 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 296591007995 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 296591007996 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 296591007997 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 296591007998 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 296591007999 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 296591008000 catalytic residue [active] 296591008001 putative FPP diphosphate binding site; other site 296591008002 putative FPP binding hydrophobic cleft; other site 296591008003 dimer interface [polypeptide binding]; other site 296591008004 putative IPP diphosphate binding site; other site 296591008005 ribosome recycling factor; Reviewed; Region: frr; PRK00083 296591008006 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 296591008007 hinge region; other site 296591008008 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 296591008009 putative nucleotide binding site [chemical binding]; other site 296591008010 uridine monophosphate binding site [chemical binding]; other site 296591008011 homohexameric interface [polypeptide binding]; other site 296591008012 elongation factor Ts; Provisional; Region: tsf; PRK09377 296591008013 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 296591008014 Elongation factor TS; Region: EF_TS; pfam00889 296591008015 Elongation factor TS; Region: EF_TS; pfam00889 296591008016 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 296591008017 rRNA interaction site [nucleotide binding]; other site 296591008018 S8 interaction site; other site 296591008019 putative laminin-1 binding site; other site 296591008020 amidase; Provisional; Region: PRK07056 296591008021 Amidase; Region: Amidase; cl11426 296591008022 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 296591008023 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 296591008024 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 296591008025 putative ATP binding site [chemical binding]; other site 296591008026 putative substrate binding site [chemical binding]; other site 296591008027 YGGT family; Region: YGGT; cl00508 296591008028 YGGT family; Region: YGGT; cl00508 296591008029 ribonuclease R; Region: RNase_R; TIGR02063 296591008030 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 296591008031 RNB domain; Region: RNB; pfam00773 296591008032 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 296591008033 RNA binding site [nucleotide binding]; other site 296591008034 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 296591008035 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 296591008036 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 296591008037 FeS/SAM binding site; other site 296591008038 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 296591008039 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 296591008040 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 296591008041 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 296591008042 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 296591008043 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 296591008044 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 296591008045 synthetase active site [active] 296591008046 NTP binding site [chemical binding]; other site 296591008047 metal binding site [ion binding]; metal-binding site 296591008048 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 296591008049 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 296591008050 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591008051 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 296591008052 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 296591008053 NAD binding site [chemical binding]; other site 296591008054 homotetramer interface [polypeptide binding]; other site 296591008055 homodimer interface [polypeptide binding]; other site 296591008056 substrate binding site [chemical binding]; other site 296591008057 active site 296591008058 Predicted dehydrogenase [General function prediction only]; Region: COG0579 296591008059 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 296591008060 N-formylglutamate amidohydrolase; Region: FGase; cl01522 296591008061 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 296591008062 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591008063 Helix-turn-helix domains; Region: HTH; cl00088 296591008064 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 296591008065 dimerization interface [polypeptide binding]; other site 296591008066 Predicted membrane protein [Function unknown]; Region: COG4125 296591008067 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 296591008068 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 296591008069 Protein of unknown function (DUF541); Region: SIMPL; cl01077 296591008070 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 296591008071 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 296591008072 active site 296591008073 phosphorylation site [posttranslational modification] 296591008074 intermolecular recognition site; other site 296591008075 dimerization interface [polypeptide binding]; other site 296591008076 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 296591008077 DNA binding site [nucleotide binding] 296591008078 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 296591008079 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 296591008080 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 296591008081 dimer interface [polypeptide binding]; other site 296591008082 phosphorylation site [posttranslational modification] 296591008083 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 296591008084 ATP binding site [chemical binding]; other site 296591008085 Mg2+ binding site [ion binding]; other site 296591008086 G-X-G motif; other site 296591008087 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 296591008088 homotrimer interaction site [polypeptide binding]; other site 296591008089 zinc binding site [ion binding]; other site 296591008090 CDP-binding sites; other site 296591008091 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 296591008092 substrate binding site; other site 296591008093 dimer interface; other site 296591008094 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 296591008095 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 296591008096 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 296591008097 ATP binding site [chemical binding]; other site 296591008098 putative Mg++ binding site [ion binding]; other site 296591008099 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 296591008100 nucleotide binding region [chemical binding]; other site 296591008101 ATP-binding site [chemical binding]; other site 296591008102 TRCF domain; Region: TRCF; cl04088 296591008103 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 296591008104 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 296591008105 oligomeric interface; other site 296591008106 putative active site [active] 296591008107 homodimer interface [polypeptide binding]; other site 296591008108 phosphoserine phosphatase SerB; Region: serB; TIGR00338 296591008109 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 296591008110 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 296591008111 motif II; other site 296591008112 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 296591008113 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 296591008114 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 296591008115 Walker A/P-loop; other site 296591008116 ATP binding site [chemical binding]; other site 296591008117 Q-loop/lid; other site 296591008118 ABC transporter signature motif; other site 296591008119 Walker B; other site 296591008120 D-loop; other site 296591008121 H-loop/switch region; other site 296591008122 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 296591008123 active site 296591008124 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 296591008125 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 296591008126 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591008127 substrate binding pocket [chemical binding]; other site 296591008128 membrane-bound complex binding site; other site 296591008129 hinge residues; other site 296591008130 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 296591008131 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 296591008132 dimer interface [polypeptide binding]; other site 296591008133 conserved gate region; other site 296591008134 putative PBP binding loops; other site 296591008135 ABC-ATPase subunit interface; other site 296591008136 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 296591008137 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 296591008138 Walker A/P-loop; other site 296591008139 ATP binding site [chemical binding]; other site 296591008140 Q-loop/lid; other site 296591008141 ABC transporter signature motif; other site 296591008142 Walker B; other site 296591008143 D-loop; other site 296591008144 H-loop/switch region; other site 296591008145 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 296591008146 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 296591008147 Moco binding site; other site 296591008148 metal coordination site [ion binding]; other site 296591008149 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 296591008150 Transposase; Region: DDE_Tnp_ISL3; pfam01610 296591008151 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 296591008152 translation initiation factor Sui1; Validated; Region: PRK06824 296591008153 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation. This fold, which includes two...; Region: SUI1_eIF1; cl00229 296591008154 Predicted RNA interaction site [nucleotide binding]; other site 296591008155 putative binding site; other site 296591008156 Mutations affecting start-site selection; other site 296591008157 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 296591008158 phosphopeptide binding site; other site 296591008159 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 296591008160 putative active site [active] 296591008161 catalytic site [active] 296591008162 putative substrate binding site [chemical binding]; other site 296591008163 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 296591008164 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 296591008165 SelR domain; Region: SelR; pfam01641 296591008166 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 296591008167 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 296591008168 Helix-turn-helix domains; Region: HTH; cl00088 296591008169 Winged helix-turn helix; Region: HTH_29; pfam13551 296591008170 Helix-turn-helix domains; Region: HTH; cl00088 296591008171 Integrase core domain; Region: rve; cl01316 296591008172 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 296591008173 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 296591008174 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 296591008175 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591008176 homodimer interface [polypeptide binding]; other site 296591008177 catalytic residue [active] 296591008178 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 296591008179 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 296591008180 minor groove reading motif; other site 296591008181 helix-hairpin-helix signature motif; other site 296591008182 substrate binding pocket [chemical binding]; other site 296591008183 active site 296591008184 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 296591008185 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 296591008186 S-adenosylmethionine binding site [chemical binding]; other site 296591008187 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 296591008188 Ligand Binding Site [chemical binding]; other site 296591008189 enoyl-CoA hydratase; Provisional; Region: PRK06144 296591008190 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 296591008191 substrate binding site [chemical binding]; other site 296591008192 oxyanion hole (OAH) forming residues; other site 296591008193 trimer interface [polypeptide binding]; other site 296591008194 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591008195 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591008196 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591008197 NMT1-like family; Region: NMT1_2; cl15260 296591008198 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 296591008199 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 296591008200 homodimer interface [polypeptide binding]; other site 296591008201 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591008202 catalytic residue [active] 296591008203 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591008204 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591008205 DNA-binding site [nucleotide binding]; DNA binding site 296591008206 FCD domain; Region: FCD; cl11656 296591008207 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 296591008208 FAD binding domain; Region: FAD_binding_4; pfam01565 296591008209 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 296591008210 Cysteine-rich domain; Region: CCG; pfam02754 296591008211 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 296591008212 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 296591008213 putative substrate binding site [chemical binding]; other site 296591008214 putative ATP binding site [chemical binding]; other site 296591008215 phosphoenolpyruvate synthase; Validated; Region: PRK06464 296591008216 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 296591008217 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 296591008218 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 296591008219 FOG: CBS domain [General function prediction only]; Region: COG0517 296591008220 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 296591008221 cobyric acid synthase; Provisional; Region: PRK00784 296591008222 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591008223 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 296591008224 catalytic triad [active] 296591008225 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 296591008226 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 296591008227 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591008228 catalytic residue [active] 296591008229 CobD/Cbib protein; Region: CobD_Cbib; cl00561 296591008230 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 296591008231 putative FMN binding site [chemical binding]; other site 296591008232 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 296591008233 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 296591008234 homodimer interface [polypeptide binding]; other site 296591008235 Walker A motif; other site 296591008236 ATP binding site [chemical binding]; other site 296591008237 hydroxycobalamin binding site [chemical binding]; other site 296591008238 Walker B motif; other site 296591008239 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 296591008240 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 296591008241 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 296591008242 dimer interface [polypeptide binding]; other site 296591008243 [2Fe-2S] cluster binding site [ion binding]; other site 296591008244 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 296591008245 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 296591008246 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 296591008247 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 296591008248 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 296591008249 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 296591008250 ABC-ATPase subunit interface; other site 296591008251 dimer interface [polypeptide binding]; other site 296591008252 putative PBP binding regions; other site 296591008253 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 296591008254 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 296591008255 putative ligand binding residues [chemical binding]; other site 296591008256 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 296591008257 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 296591008258 Walker A/P-loop; other site 296591008259 ATP binding site [chemical binding]; other site 296591008260 Q-loop/lid; other site 296591008261 ABC transporter signature motif; other site 296591008262 Walker B; other site 296591008263 D-loop; other site 296591008264 H-loop/switch region; other site 296591008265 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 296591008266 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 296591008267 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 296591008268 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 296591008269 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 296591008270 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 296591008271 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 296591008272 S-adenosylmethionine binding site [chemical binding]; other site 296591008273 CbiD; Region: CbiD; cl00828 296591008274 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 296591008275 Precorrin-8X methylmutase; Region: CbiC; pfam02570 296591008276 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 296591008277 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 296591008278 putative active site [active] 296591008279 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 296591008280 putative active site [active] 296591008281 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 296591008282 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 296591008283 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 296591008284 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591008285 Walker A/P-loop; other site 296591008286 ATP binding site [chemical binding]; other site 296591008287 Q-loop/lid; other site 296591008288 ABC transporter signature motif; other site 296591008289 Walker B; other site 296591008290 D-loop; other site 296591008291 H-loop/switch region; other site 296591008292 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 296591008293 putative PBP binding regions; other site 296591008294 ABC-ATPase subunit interface; other site 296591008295 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 296591008296 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 296591008297 intersubunit interface [polypeptide binding]; other site 296591008298 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 296591008299 homotrimer interface [polypeptide binding]; other site 296591008300 Walker A motif; other site 296591008301 GTP binding site [chemical binding]; other site 296591008302 Walker B motif; other site 296591008303 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 296591008304 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 296591008305 cobalamin binding residues [chemical binding]; other site 296591008306 putative BtuC binding residues; other site 296591008307 dimer interface [polypeptide binding]; other site 296591008308 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 296591008309 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591008310 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 296591008311 catalytic triad [active] 296591008312 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 296591008313 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 296591008314 N-terminal plug; other site 296591008315 ligand-binding site [chemical binding]; other site 296591008316 Cell division protein ZapA; Region: ZapA; cl01146 296591008317 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 296591008318 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591008319 Helix-turn-helix domains; Region: HTH; cl00088 296591008320 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 296591008321 putative dimerization interface [polypeptide binding]; other site 296591008322 haloacid dehalogenase-like hydrolase family protein; Region: PLN02779 296591008323 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 296591008324 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 296591008325 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 296591008326 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591008327 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 296591008328 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591008329 NMT1-like family; Region: NMT1_2; cl15260 296591008330 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 296591008331 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 296591008332 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 296591008333 BON domain; Region: BON; cl02771 296591008334 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591008335 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 296591008336 ligand binding site [chemical binding]; other site 296591008337 flexible hinge region; other site 296591008338 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 296591008339 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 296591008340 PYR/PP interface [polypeptide binding]; other site 296591008341 dimer interface [polypeptide binding]; other site 296591008342 TPP binding site [chemical binding]; other site 296591008343 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 296591008344 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 296591008345 TPP-binding site; other site 296591008346 dimer interface [polypeptide binding]; other site 296591008347 formyl-coenzyme A transferase; Provisional; Region: PRK05398 296591008348 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591008349 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 296591008350 PAS domain; Region: PAS_9; pfam13426 296591008351 putative active site [active] 296591008352 heme pocket [chemical binding]; other site 296591008353 formyl-coenzyme A transferase; Provisional; Region: PRK05398 296591008354 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591008355 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 296591008356 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 296591008357 putative dimer interface [polypeptide binding]; other site 296591008358 [2Fe-2S] cluster binding site [ion binding]; other site 296591008359 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 296591008360 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 296591008361 SLBB domain; Region: SLBB; pfam10531 296591008362 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 296591008363 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 296591008364 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 296591008365 catalytic loop [active] 296591008366 iron binding site [ion binding]; other site 296591008367 4Fe-4S binding domain; Region: Fer4; cl02805 296591008368 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 296591008369 [4Fe-4S] binding site [ion binding]; other site 296591008370 molybdopterin cofactor binding site; other site 296591008371 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 296591008372 molybdopterin cofactor binding site; other site 296591008373 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 296591008374 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 296591008375 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 296591008376 dimerization interface [polypeptide binding]; other site 296591008377 putative DNA binding site [nucleotide binding]; other site 296591008378 putative Zn2+ binding site [ion binding]; other site 296591008379 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 296591008380 Helix-turn-helix domains; Region: HTH; cl00088 296591008381 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 296591008382 EamA-like transporter family; Region: EamA; cl01037 296591008383 SWIB/MDM2 domain; Region: SWIB; cl02489 296591008384 dipeptide transporter permease DppB; Provisional; Region: PRK10914 296591008385 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 296591008386 dimer interface [polypeptide binding]; other site 296591008387 conserved gate region; other site 296591008388 putative PBP binding loops; other site 296591008389 ABC-ATPase subunit interface; other site 296591008390 dipeptide transporter; Provisional; Region: PRK10913 296591008391 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 296591008392 dimer interface [polypeptide binding]; other site 296591008393 conserved gate region; other site 296591008394 putative PBP binding loops; other site 296591008395 ABC-ATPase subunit interface; other site 296591008396 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 296591008397 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 296591008398 Walker A/P-loop; other site 296591008399 ATP binding site [chemical binding]; other site 296591008400 Q-loop/lid; other site 296591008401 ABC transporter signature motif; other site 296591008402 Walker B; other site 296591008403 D-loop; other site 296591008404 H-loop/switch region; other site 296591008405 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591008406 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 296591008407 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 296591008408 Walker A/P-loop; other site 296591008409 ATP binding site [chemical binding]; other site 296591008410 Q-loop/lid; other site 296591008411 ABC transporter signature motif; other site 296591008412 Walker B; other site 296591008413 D-loop; other site 296591008414 H-loop/switch region; other site 296591008415 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591008416 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 296591008417 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 296591008418 peptide binding site [polypeptide binding]; other site 296591008419 thiamine pyrophosphate protein; Validated; Region: PRK08199 296591008420 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 296591008421 PYR/PP interface [polypeptide binding]; other site 296591008422 dimer interface [polypeptide binding]; other site 296591008423 TPP binding site [chemical binding]; other site 296591008424 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 296591008425 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 296591008426 TPP-binding site [chemical binding]; other site 296591008427 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 296591008428 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 296591008429 active site 296591008430 catalytic tetrad [active] 296591008431 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 296591008432 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591008433 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 296591008434 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 296591008435 Major Facilitator Superfamily; Region: MFS_1; pfam07690 296591008436 putative substrate translocation pore; other site 296591008437 Cupin domain; Region: Cupin_2; cl09118 296591008438 Helix-turn-helix domain; Region: HTH_18; pfam12833 296591008439 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 296591008440 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 296591008441 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 296591008442 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 296591008443 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 296591008444 Protein export membrane protein; Region: SecD_SecF; cl14618 296591008445 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 296591008446 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 296591008447 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 296591008448 dimer interface [polypeptide binding]; other site 296591008449 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591008450 catalytic residue [active] 296591008451 cystathionine gamma-synthase; Provisional; Region: PRK07811 296591008452 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 296591008453 homodimer interface [polypeptide binding]; other site 296591008454 substrate-cofactor binding pocket; other site 296591008455 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591008456 catalytic residue [active] 296591008457 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 296591008458 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 296591008459 Helix-turn-helix domains; Region: HTH; cl00088 296591008460 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 296591008461 putative dimerization interface [polypeptide binding]; other site 296591008462 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591008463 NMT1-like family; Region: NMT1_2; cl15260 296591008464 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 296591008465 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 296591008466 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 296591008467 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 296591008468 putative active site pocket [active] 296591008469 putative metal binding site [ion binding]; other site 296591008470 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 296591008471 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 296591008472 inhibitor site; inhibition site 296591008473 active site 296591008474 dimer interface [polypeptide binding]; other site 296591008475 catalytic residue [active] 296591008476 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591008477 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591008478 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 296591008479 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 296591008480 DctM-like transporters; Region: DctM; pfam06808 296591008481 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591008482 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591008483 Uncharacterized conserved protein [Function unknown]; Region: COG3391 296591008484 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 296591008485 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 296591008486 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 296591008487 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 296591008488 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591008489 NAD(P) binding site [chemical binding]; other site 296591008490 catalytic residues [active] 296591008491 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 296591008492 Transposase; Region: DEDD_Tnp_IS110; pfam01548 296591008493 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 296591008494 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 296591008495 Helix-turn-helix domains; Region: HTH; cl00088 296591008496 putative transposase OrfB; Reviewed; Region: PHA02517 296591008497 HTH-like domain; Region: HTH_21; pfam13276 296591008498 Integrase core domain; Region: rve; cl01316 296591008499 Integrase core domain; Region: rve_3; cl15866 296591008500 NMT1-like family; Region: NMT1_2; cl15260 296591008501 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 296591008502 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 296591008503 active site 296591008504 substrate binding site [chemical binding]; other site 296591008505 metal binding site [ion binding]; metal-binding site 296591008506 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 296591008507 dihydropteroate synthase; Region: DHPS; TIGR01496 296591008508 substrate binding pocket [chemical binding]; other site 296591008509 dimer interface [polypeptide binding]; other site 296591008510 inhibitor binding site; inhibition site 296591008511 FtsH Extracellular; Region: FtsH_ext; pfam06480 296591008512 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 296591008513 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 296591008514 Walker A motif; other site 296591008515 ATP binding site [chemical binding]; other site 296591008516 Walker B motif; other site 296591008517 arginine finger; other site 296591008518 Peptidase family M41; Region: Peptidase_M41; pfam01434 296591008519 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 296591008520 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; cl15754 296591008521 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 296591008522 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 296591008523 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 296591008524 active site 296591008525 Zn binding site [ion binding]; other site 296591008526 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 296591008527 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 296591008528 catalytic residues [active] 296591008529 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 296591008530 tetramer (dimer of dimers) interface [polypeptide binding]; other site 296591008531 active site 296591008532 dimer interface [polypeptide binding]; other site 296591008533 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 296591008534 quinone interaction residues [chemical binding]; other site 296591008535 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 296591008536 active site 296591008537 catalytic residues [active] 296591008538 FMN binding site [chemical binding]; other site 296591008539 substrate binding site [chemical binding]; other site 296591008540 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 296591008541 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 296591008542 S-adenosylmethionine binding site [chemical binding]; other site 296591008543 aspartate kinase; Reviewed; Region: PRK06635 296591008544 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 296591008545 putative nucleotide binding site [chemical binding]; other site 296591008546 putative catalytic residues [active] 296591008547 putative Mg ion binding site [ion binding]; other site 296591008548 putative aspartate binding site [chemical binding]; other site 296591008549 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 296591008550 putative allosteric regulatory site; other site 296591008551 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 296591008552 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 296591008553 Ligand Binding Site [chemical binding]; other site 296591008554 TilS substrate binding domain; Region: TilS; pfam09179 296591008555 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 296591008556 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 296591008557 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 296591008558 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 296591008559 endonuclease III; Region: ENDO3c; smart00478 296591008560 minor groove reading motif; other site 296591008561 helix-hairpin-helix signature motif; other site 296591008562 substrate binding pocket [chemical binding]; other site 296591008563 active site 296591008564 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 296591008565 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 296591008566 active site 296591008567 HIGH motif; other site 296591008568 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 296591008569 KMSKS motif; other site 296591008570 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 296591008571 tRNA binding surface [nucleotide binding]; other site 296591008572 anticodon binding site; other site 296591008573 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 296591008574 binding surface 296591008575 TPR motif; other site 296591008576 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 296591008577 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 296591008578 active site 296591008579 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 296591008580 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 296591008581 substrate binding site [chemical binding]; other site 296591008582 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 296591008583 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 296591008584 putative active site [active] 296591008585 putative metal binding site [ion binding]; other site 296591008586 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 296591008587 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 296591008588 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 296591008589 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 296591008590 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 296591008591 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 296591008592 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 296591008593 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 296591008594 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 296591008595 N-acetyl-D-glucosamine binding site [chemical binding]; other site 296591008596 catalytic residue [active] 296591008597 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 296591008598 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 296591008599 dimer interface [polypeptide binding]; other site 296591008600 glycine-pyridoxal phosphate binding site [chemical binding]; other site 296591008601 active site 296591008602 folate binding site [chemical binding]; other site 296591008603 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 296591008604 ATP cone domain; Region: ATP-cone; pfam03477 296591008605 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 296591008606 Type II transport protein GspH; Region: GspH; pfam12019 296591008607 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 296591008608 Type II transport protein GspH; Region: GspH; pfam12019 296591008609 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 296591008610 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 296591008611 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 296591008612 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 296591008613 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 296591008614 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 296591008615 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 296591008616 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 296591008617 catalytic motif [active] 296591008618 Zn binding site [ion binding]; other site 296591008619 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 296591008620 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 296591008621 Lumazine binding domain; Region: Lum_binding; pfam00677 296591008622 Lumazine binding domain; Region: Lum_binding; pfam00677 296591008623 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 296591008624 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 296591008625 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 296591008626 dimerization interface [polypeptide binding]; other site 296591008627 active site 296591008628 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 296591008629 homopentamer interface [polypeptide binding]; other site 296591008630 active site 296591008631 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 296591008632 putative RNA binding site [nucleotide binding]; other site 296591008633 aminotransferase; Validated; Region: PRK07337 296591008634 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 296591008635 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591008636 homodimer interface [polypeptide binding]; other site 296591008637 catalytic residue [active] 296591008638 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 296591008639 active site 296591008640 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 296591008641 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 296591008642 Gram-negative bacterial tonB protein; Region: TonB; cl10048 296591008643 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 296591008644 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 296591008645 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 296591008646 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 296591008647 generic binding surface II; other site 296591008648 generic binding surface I; other site 296591008649 rhodanese superfamily protein; Provisional; Region: PRK05320 296591008650 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 296591008651 active site residue [active] 296591008652 Protein of unknown function, DUF599; Region: DUF599; cl01575 296591008653 Pirin-related protein [General function prediction only]; Region: COG1741 296591008654 Cupin domain; Region: Cupin_2; cl09118 296591008655 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 296591008656 OsmC-like protein; Region: OsmC; cl00767 296591008657 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 296591008658 DoxX; Region: DoxX; cl00976 296591008659 Cupin domain; Region: Cupin_2; cl09118 296591008660 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 296591008661 Helix-turn-helix domains; Region: HTH; cl00088 296591008662 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 296591008663 dimerization interface [polypeptide binding]; other site 296591008664 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 296591008665 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591008666 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 296591008667 active site 296591008668 HIGH motif; other site 296591008669 nucleotide binding site [chemical binding]; other site 296591008670 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 296591008671 active site 296591008672 KMSKS motif; other site 296591008673 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 296591008674 S-adenosylmethionine binding site [chemical binding]; other site 296591008675 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 296591008676 PSRA_1: Pseudouridine synthase, a subgroup of the RluA family. This group is comprised of bacterial proteins assigned to the RluA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PSRA_1; cd02558 296591008677 probable active site [active] 296591008678 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 296591008679 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 296591008680 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 296591008681 catalytic residues [active] 296591008682 probable methyltransferase; Region: TIGR03438 296591008683 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591008684 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 296591008685 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 296591008686 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 296591008687 motif 1; other site 296591008688 active site 296591008689 motif 2; other site 296591008690 motif 3; other site 296591008691 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 296591008692 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 296591008693 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591008694 DNA-binding site [nucleotide binding]; DNA binding site 296591008695 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 296591008696 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591008697 homodimer interface [polypeptide binding]; other site 296591008698 catalytic residue [active] 296591008699 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 296591008700 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 296591008701 inhibitor-cofactor binding pocket; inhibition site 296591008702 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591008703 catalytic residue [active] 296591008704 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 296591008705 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 296591008706 Walker A/P-loop; other site 296591008707 ATP binding site [chemical binding]; other site 296591008708 Q-loop/lid; other site 296591008709 ABC transporter signature motif; other site 296591008710 Walker B; other site 296591008711 D-loop; other site 296591008712 H-loop/switch region; other site 296591008713 TOBE domain; Region: TOBE_2; cl01440 296591008714 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 296591008715 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 296591008716 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 296591008717 dimer interface [polypeptide binding]; other site 296591008718 conserved gate region; other site 296591008719 putative PBP binding loops; other site 296591008720 ABC-ATPase subunit interface; other site 296591008721 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 296591008722 dimer interface [polypeptide binding]; other site 296591008723 conserved gate region; other site 296591008724 putative PBP binding loops; other site 296591008725 ABC-ATPase subunit interface; other site 296591008726 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591008727 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 296591008728 tetramerization interface [polypeptide binding]; other site 296591008729 NAD(P) binding site [chemical binding]; other site 296591008730 catalytic residues [active] 296591008731 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 296591008732 putative active site [active] 296591008733 putative triphosphate binding site [ion binding]; other site 296591008734 putative metal binding residues [ion binding]; other site 296591008735 CHAD domain; Region: CHAD; cl10506 296591008736 Cupin domain; Region: Cupin_2; cl09118 296591008737 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 296591008738 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 296591008739 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 296591008740 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 296591008741 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591008742 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 296591008743 NAD(P) binding site [chemical binding]; other site 296591008744 active site 296591008745 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 296591008746 RNB domain; Region: RNB; pfam00773 296591008747 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 296591008748 RNA binding site [nucleotide binding]; other site 296591008749 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 296591008750 EVE domain; Region: EVE; cl00728 296591008751 Transcriptional regulator; Region: Transcrip_reg; cl00361 296591008752 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 296591008753 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591008754 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 296591008755 LysR family transcriptional regulator; Provisional; Region: PRK14997 296591008756 Helix-turn-helix domains; Region: HTH; cl00088 296591008757 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 296591008758 putative effector binding pocket; other site 296591008759 dimerization interface [polypeptide binding]; other site 296591008760 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 296591008761 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591008762 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 296591008763 NMT1-like family; Region: NMT1_2; cl15260 296591008764 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 296591008765 Cu(I) binding site [ion binding]; other site 296591008766 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 296591008767 dimer interface [polypeptide binding]; other site 296591008768 conserved gate region; other site 296591008769 putative PBP binding loops; other site 296591008770 ABC-ATPase subunit interface; other site 296591008771 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 296591008772 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 296591008773 Walker A/P-loop; other site 296591008774 ATP binding site [chemical binding]; other site 296591008775 Q-loop/lid; other site 296591008776 ABC transporter signature motif; other site 296591008777 Walker B; other site 296591008778 D-loop; other site 296591008779 H-loop/switch region; other site 296591008780 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 296591008781 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 296591008782 active site residue [active] 296591008783 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 296591008784 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 296591008785 putative GSH binding site (G-site) [chemical binding]; other site 296591008786 active site cysteine [active] 296591008787 putative C-terminal domain interface [polypeptide binding]; other site 296591008788 putative dimer interface [polypeptide binding]; other site 296591008789 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 296591008790 putative N-terminal domain interface [polypeptide binding]; other site 296591008791 putative dimer interface [polypeptide binding]; other site 296591008792 putative substrate binding pocket (H-site) [chemical binding]; other site 296591008793 exonuclease I; Provisional; Region: sbcB; PRK11779 296591008794 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 296591008795 active site 296591008796 substrate binding site [chemical binding]; other site 296591008797 catalytic site [active] 296591008798 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 296591008799 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 296591008800 Clp amino terminal domain; Region: Clp_N; pfam02861 296591008801 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 296591008802 Walker A motif; other site 296591008803 ATP binding site [chemical binding]; other site 296591008804 Walker B motif; other site 296591008805 arginine finger; other site 296591008806 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 296591008807 Walker A motif; other site 296591008808 ATP binding site [chemical binding]; other site 296591008809 Walker B motif; other site 296591008810 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 296591008811 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 296591008812 isocitrate dehydrogenase; Validated; Region: PRK07362 296591008813 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 296591008814 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 296591008815 superoxide dismutase; Provisional; Region: PRK10543 296591008816 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 296591008817 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 296591008818 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 296591008819 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 296591008820 generic binding surface II; other site 296591008821 generic binding surface I; other site 296591008822 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 296591008823 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 296591008824 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 296591008825 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 296591008826 Trm112p-like protein; Region: Trm112p; cl01066 296591008827 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 296591008828 Ligand binding site; other site 296591008829 oligomer interface; other site 296591008830 adenylate kinase; Reviewed; Region: adk; PRK00279 296591008831 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 296591008832 AMP-binding site [chemical binding]; other site 296591008833 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 296591008834 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 296591008835 active site 296591008836 homotetramer interface [polypeptide binding]; other site 296591008837 homodimer interface [polypeptide binding]; other site 296591008838 LexA repressor; Validated; Region: PRK00215 296591008839 Helix-turn-helix domains; Region: HTH; cl00088 296591008840 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 296591008841 Catalytic site [active] 296591008842 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 296591008843 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591008844 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 296591008845 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591008846 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 296591008847 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 296591008848 enoyl-CoA hydratase; Provisional; Region: PRK07511 296591008849 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 296591008850 substrate binding site [chemical binding]; other site 296591008851 oxyanion hole (OAH) forming residues; other site 296591008852 trimer interface [polypeptide binding]; other site 296591008853 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591008854 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 296591008855 ligand binding site [chemical binding]; other site 296591008856 flexible hinge region; other site 296591008857 Helix-turn-helix domains; Region: HTH; cl00088 296591008858 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 296591008859 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 296591008860 putative active site [active] 296591008861 putative substrate binding site [chemical binding]; other site 296591008862 ATP binding site [chemical binding]; other site 296591008863 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591008864 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 296591008865 FAD binding site [chemical binding]; other site 296591008866 substrate binding site [chemical binding]; other site 296591008867 catalytic base [active] 296591008868 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 296591008869 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 296591008870 C-terminal domain interface [polypeptide binding]; other site 296591008871 GSH binding site (G-site) [chemical binding]; other site 296591008872 dimer interface [polypeptide binding]; other site 296591008873 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 296591008874 N-terminal domain interface [polypeptide binding]; other site 296591008875 putative dimer interface [polypeptide binding]; other site 296591008876 active site 296591008877 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591008878 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591008879 integrase; Provisional; Region: PRK09692 296591008880 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 296591008881 DNA binding site [nucleotide binding] 296591008882 Int/Topo IB signature motif; other site 296591008883 active site 296591008884 CHC2 zinc finger; Region: zf-CHC2; cl15369 296591008885 AAA domain; Region: AAA_25; pfam13481 296591008886 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591008887 Walker A motif; other site 296591008888 ATP binding site [chemical binding]; other site 296591008889 Walker B motif; other site 296591008890 Phage capsid family; Region: Phage_capsid; pfam05065 296591008891 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 296591008892 Protein of unknown function, DUF488; Region: DUF488; cl01246 296591008893 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 296591008894 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 296591008895 AMP-binding enzyme; Region: AMP-binding; cl15778 296591008896 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591008897 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591008898 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 296591008899 putative ligand binding site [chemical binding]; other site 296591008900 LysE type translocator; Region: LysE; cl00565 296591008901 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 296591008902 TM-ABC transporter signature motif; other site 296591008903 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 296591008904 TM-ABC transporter signature motif; other site 296591008905 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591008906 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 296591008907 Walker A/P-loop; other site 296591008908 ATP binding site [chemical binding]; other site 296591008909 Q-loop/lid; other site 296591008910 ABC transporter signature motif; other site 296591008911 Walker B; other site 296591008912 D-loop; other site 296591008913 H-loop/switch region; other site 296591008914 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591008915 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 296591008916 Walker A/P-loop; other site 296591008917 ATP binding site [chemical binding]; other site 296591008918 Q-loop/lid; other site 296591008919 ABC transporter signature motif; other site 296591008920 Walker B; other site 296591008921 D-loop; other site 296591008922 H-loop/switch region; other site 296591008923 Cache domain; Region: Cache_1; pfam02743 296591008924 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 296591008925 PAS fold; Region: PAS_3; pfam08447 296591008926 putative active site [active] 296591008927 heme pocket [chemical binding]; other site 296591008928 PAS fold; Region: PAS_3; pfam08447 296591008929 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 296591008930 PAS domain S-box; Region: sensory_box; TIGR00229 296591008931 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 296591008932 GAF domain; Region: GAF_2; pfam13185 296591008933 GAF domain; Region: GAF; cl15785 296591008934 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 296591008935 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 296591008936 putative active site [active] 296591008937 heme pocket [chemical binding]; other site 296591008938 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 296591008939 dimer interface [polypeptide binding]; other site 296591008940 phosphorylation site [posttranslational modification] 296591008941 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 296591008942 ATP binding site [chemical binding]; other site 296591008943 Mg2+ binding site [ion binding]; other site 296591008944 G-X-G motif; other site 296591008945 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 296591008946 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591008947 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 296591008948 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591008949 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591008950 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591008951 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 296591008952 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 296591008953 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 296591008954 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 296591008955 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 296591008956 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 296591008957 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 296591008958 Cupin domain; Region: Cupin_2; cl09118 296591008959 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 296591008960 Helix-turn-helix domains; Region: HTH; cl00088 296591008961 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591008962 NMT1-like family; Region: NMT1_2; cl15260 296591008963 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 296591008964 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591008965 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591008966 CHRD domain; Region: CHRD; cl06473 296591008967 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 296591008968 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 296591008969 putative DNA binding site [nucleotide binding]; other site 296591008970 putative homodimer interface [polypeptide binding]; other site 296591008971 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 296591008972 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 296591008973 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 296591008974 active site 296591008975 DNA binding site [nucleotide binding] 296591008976 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 296591008977 DNA binding site [nucleotide binding] 296591008978 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 296591008979 nucleotide binding site [chemical binding]; other site 296591008980 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 296591008981 glutathione s-transferase; Provisional; Region: PTZ00057 296591008982 GSH binding site (G-site) [chemical binding]; other site 296591008983 C-terminal domain interface [polypeptide binding]; other site 296591008984 dimer interface [polypeptide binding]; other site 296591008985 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 296591008986 N-terminal domain interface [polypeptide binding]; other site 296591008987 dimer interface [polypeptide binding]; other site 296591008988 substrate binding pocket (H-site) [chemical binding]; other site 296591008989 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 296591008990 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 296591008991 catalytic residues [active] 296591008992 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 296591008993 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 296591008994 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591008995 NMT1-like family; Region: NMT1_2; cl15260 296591008996 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591008997 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591008998 active site 296591008999 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 296591009000 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 296591009001 dimer interface [polypeptide binding]; other site 296591009002 active site 296591009003 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 296591009004 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 296591009005 substrate binding site [chemical binding]; other site 296591009006 oxyanion hole (OAH) forming residues; other site 296591009007 trimer interface [polypeptide binding]; other site 296591009008 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591009009 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 296591009010 Cytochrome c; Region: Cytochrom_C; cl11414 296591009011 sulfite oxidase; Provisional; Region: PLN00177 296591009012 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 296591009013 Moco binding site; other site 296591009014 metal coordination site [ion binding]; other site 296591009015 dimerization interface [polypeptide binding]; other site 296591009016 Helix-turn-helix domains; Region: HTH; cl00088 296591009017 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 296591009018 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591009019 Coenzyme A binding pocket [chemical binding]; other site 296591009020 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 296591009021 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591009022 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591009023 NMT1-like family; Region: NMT1_2; cl15260 296591009024 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591009025 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 296591009026 NAD(P) binding site [chemical binding]; other site 296591009027 enoyl-CoA hydratase; Provisional; Region: PRK06127 296591009028 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 296591009029 substrate binding site [chemical binding]; other site 296591009030 oxyanion hole (OAH) forming residues; other site 296591009031 trimer interface [polypeptide binding]; other site 296591009032 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591009033 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591009034 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 296591009035 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591009036 DNA-binding site [nucleotide binding]; DNA binding site 296591009037 FCD domain; Region: FCD; cl11656 296591009038 Chromate transporter; Region: Chromate_transp; pfam02417 296591009039 Chromate transporter; Region: Chromate_transp; pfam02417 296591009040 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 296591009041 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 296591009042 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 296591009043 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 296591009044 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 296591009045 Walker A/P-loop; other site 296591009046 ATP binding site [chemical binding]; other site 296591009047 Q-loop/lid; other site 296591009048 ABC transporter signature motif; other site 296591009049 Walker B; other site 296591009050 D-loop; other site 296591009051 H-loop/switch region; other site 296591009052 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 296591009053 active site 296591009054 catalytic triad [active] 296591009055 oxyanion hole [active] 296591009056 switch loop; other site 296591009057 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 296591009058 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 296591009059 active site residue [active] 296591009060 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 296591009061 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591009062 Walker A motif; other site 296591009063 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 296591009064 Hom_end-associated Hint; Region: Hom_end_hint; pfam05203 296591009065 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 296591009066 ATP binding site [chemical binding]; other site 296591009067 Walker B motif; other site 296591009068 DNA binding loops [nucleotide binding] 296591009069 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 296591009070 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 296591009071 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 296591009072 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 296591009073 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 296591009074 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 296591009075 Integrase core domain; Region: rve; cl01316 296591009076 Sodium:solute symporter family; Region: SSF; cl00456 296591009077 Sodium:solute symporter family; Region: SSF; cl00456 296591009078 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 296591009079 phosphoenolpyruvate synthase; Validated; Region: PRK06464 296591009080 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 296591009081 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 296591009082 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 296591009083 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 296591009084 peroxiredoxin; Region: AhpC; TIGR03137 296591009085 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 296591009086 dimer interface [polypeptide binding]; other site 296591009087 decamer (pentamer of dimers) interface [polypeptide binding]; other site 296591009088 catalytic triad [active] 296591009089 peroxidatic and resolving cysteines [active] 296591009090 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 296591009091 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 296591009092 catalytic residue [active] 296591009093 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 296591009094 catalytic residues [active] 296591009095 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591009096 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 296591009097 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 296591009098 heme binding site [chemical binding]; other site 296591009099 ferroxidase pore; other site 296591009100 ferroxidase diiron center [ion binding]; other site 296591009101 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 296591009102 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 296591009103 N-terminal plug; other site 296591009104 ligand-binding site [chemical binding]; other site 296591009105 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 296591009106 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 296591009107 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 296591009108 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 296591009109 active site 296591009110 substrate binding site [chemical binding]; other site 296591009111 FMN binding site [chemical binding]; other site 296591009112 putative catalytic residues [active] 296591009113 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 296591009114 Gram-negative bacterial tonB protein; Region: TonB; cl10048 296591009115 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 296591009116 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 296591009117 Hemin uptake protein hemP; Region: hemP; cl10043 296591009118 Domain of unknown function (DUF336); Region: DUF336; cl01249 296591009119 YccA-like proteins; Region: YccA_like; cd10433 296591009120 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 296591009121 TRAM domain; Region: TRAM; cl01282 296591009122 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; cl15754 296591009123 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591009124 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 296591009125 active site 296591009126 metal binding site [ion binding]; metal-binding site 296591009127 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 296591009128 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 296591009129 putative peptidoglycan binding site; other site 296591009130 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591009131 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 296591009132 Survival protein SurE; Region: SurE; cl00448 296591009133 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 296591009134 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 296591009135 NAD(P) binding site [chemical binding]; other site 296591009136 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 296591009137 Response regulator receiver domain; Region: Response_reg; pfam00072 296591009138 active site 296591009139 phosphorylation site [posttranslational modification] 296591009140 intermolecular recognition site; other site 296591009141 dimerization interface [polypeptide binding]; other site 296591009142 periplasmic folding chaperone; Provisional; Region: PRK10788 296591009143 SurA N-terminal domain; Region: SurA_N_3; cl07813 296591009144 PPIC-type PPIASE domain; Region: Rotamase; cl08278 296591009145 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 296591009146 IHF dimer interface [polypeptide binding]; other site 296591009147 IHF - DNA interface [nucleotide binding]; other site 296591009148 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 296591009149 tartrate dehydrogenase; Provisional; Region: PRK08194 296591009150 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591009151 transcriptional activator TtdR; Provisional; Region: PRK09801 296591009152 Helix-turn-helix domains; Region: HTH; cl00088 296591009153 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 296591009154 putative effector binding pocket; other site 296591009155 putative dimerization interface [polypeptide binding]; other site 296591009156 EamA-like transporter family; Region: EamA; cl01037 296591009157 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 296591009158 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 296591009159 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 296591009160 GIY-YIG motif/motif A; other site 296591009161 active site 296591009162 catalytic site [active] 296591009163 putative DNA binding site [nucleotide binding]; other site 296591009164 metal binding site [ion binding]; metal-binding site 296591009165 UvrB/uvrC motif; Region: UVR; pfam02151 296591009166 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 296591009167 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 296591009168 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 296591009169 elongation factor P; Validated; Region: PRK00529 296591009170 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 296591009171 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 296591009172 RNA binding site [nucleotide binding]; other site 296591009173 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 296591009174 RNA binding site [nucleotide binding]; other site 296591009175 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 296591009176 Major Facilitator Superfamily; Region: MFS_1; pfam07690 296591009177 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 296591009178 putative substrate translocation pore; other site 296591009179 RmuC family; Region: RmuC; pfam02646 296591009180 glyoxylate reductase; Reviewed; Region: PRK13243 296591009181 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591009182 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 296591009183 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 296591009184 transmembrane helices; other site 296591009185 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 296591009186 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 296591009187 active site 296591009188 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 296591009189 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591009190 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 296591009191 Walker A/P-loop; other site 296591009192 ATP binding site [chemical binding]; other site 296591009193 Q-loop/lid; other site 296591009194 ABC transporter signature motif; other site 296591009195 Walker B; other site 296591009196 D-loop; other site 296591009197 H-loop/switch region; other site 296591009198 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591009199 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 296591009200 Walker A/P-loop; other site 296591009201 ATP binding site [chemical binding]; other site 296591009202 Q-loop/lid; other site 296591009203 ABC transporter signature motif; other site 296591009204 Walker B; other site 296591009205 D-loop; other site 296591009206 H-loop/switch region; other site 296591009207 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 296591009208 TM-ABC transporter signature motif; other site 296591009209 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 296591009210 TM-ABC transporter signature motif; other site 296591009211 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 296591009212 putative FMN binding site [chemical binding]; other site 296591009213 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 296591009214 active site 296591009215 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 296591009216 Phasin protein; Region: Phasin_2; cl11491 296591009217 putative transposase OrfB; Reviewed; Region: PHA02517 296591009218 Integrase core domain; Region: rve; cl01316 296591009219 Integrase core domain; Region: rve_3; cl15866 296591009220 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 296591009221 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 296591009222 nucleophile elbow; other site 296591009223 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 296591009224 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 296591009225 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 296591009226 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 296591009227 NAD binding site [chemical binding]; other site 296591009228 homotetramer interface [polypeptide binding]; other site 296591009229 homodimer interface [polypeptide binding]; other site 296591009230 active site 296591009231 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 296591009232 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 296591009233 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 296591009234 DNA primase, catalytic core; Region: dnaG; TIGR01391 296591009235 CHC2 zinc finger; Region: zf-CHC2; cl15369 296591009236 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 296591009237 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 296591009238 active site 296591009239 metal binding site [ion binding]; metal-binding site 296591009240 interdomain interaction site; other site 296591009241 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 296591009242 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 296591009243 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 296591009244 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 296591009245 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 296591009246 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 296591009247 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 296591009248 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 296591009249 DNA binding residues [nucleotide binding] 296591009250 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 296591009251 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 296591009252 putative active site pocket [active] 296591009253 metal binding site [ion binding]; metal-binding site 296591009254 cell density-dependent motility repressor; Provisional; Region: PRK10082 296591009255 Helix-turn-helix domains; Region: HTH; cl00088 296591009256 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 296591009257 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 296591009258 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 296591009259 active site 296591009260 catalytic residues [active] 296591009261 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591009262 NMT1-like family; Region: NMT1_2; cl15260 296591009263 tartronate semialdehyde reductase; Provisional; Region: PRK15059 296591009264 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591009265 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 296591009266 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 296591009267 galactarate dehydratase; Region: galactar-dH20; TIGR03248 296591009268 SAF domain; Region: SAF; cl00555 296591009269 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 296591009270 DctM-like transporters; Region: DctM; pfam06808 296591009271 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 296591009272 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 296591009273 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591009274 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 296591009275 extended (e) SDRs; Region: SDR_e; cd08946 296591009276 NAD(P) binding site [chemical binding]; other site 296591009277 active site 296591009278 substrate binding site [chemical binding]; other site 296591009279 Transcriptional regulators [Transcription]; Region: FadR; COG2186 296591009280 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591009281 DNA-binding site [nucleotide binding]; DNA binding site 296591009282 FCD domain; Region: FCD; cl11656 296591009283 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 296591009284 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 296591009285 substrate binding site [chemical binding]; other site 296591009286 oxyanion hole (OAH) forming residues; other site 296591009287 trimer interface [polypeptide binding]; other site 296591009288 feruloyl-CoA synthase; Reviewed; Region: PRK08180 296591009289 AMP-binding enzyme; Region: AMP-binding; cl15778 296591009290 putative acyltransferase; Provisional; Region: PRK05790 296591009291 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 296591009292 dimer interface [polypeptide binding]; other site 296591009293 active site 296591009294 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591009295 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 296591009296 NAD binding site [chemical binding]; other site 296591009297 homotetramer interface [polypeptide binding]; other site 296591009298 homodimer interface [polypeptide binding]; other site 296591009299 active site 296591009300 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 296591009301 active site 296591009302 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591009303 NMT1-like family; Region: NMT1_2; cl15260 296591009304 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 296591009305 trimer interface [polypeptide binding]; other site 296591009306 eyelet of channel; other site 296591009307 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 296591009308 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591009309 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591009310 active site 296591009311 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 296591009312 Helix-turn-helix domains; Region: HTH; cl00088 296591009313 Helix-turn-helix domains; Region: HTH; cl00088 296591009314 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591009315 NMT1-like family; Region: NMT1_2; cl15260 296591009316 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591009317 DNA-binding site [nucleotide binding]; DNA binding site 296591009318 FCD domain; Region: FCD; cl11656 296591009319 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 296591009320 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 296591009321 dimer interface [polypeptide binding]; other site 296591009322 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 296591009323 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 296591009324 chaperone protein DnaJ; Provisional; Region: PRK10767 296591009325 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 296591009326 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 296591009327 substrate binding site [polypeptide binding]; other site 296591009328 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 296591009329 Zn binding sites [ion binding]; other site 296591009330 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 296591009331 dimer interface [polypeptide binding]; other site 296591009332 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 296591009333 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 296591009334 putative active site [active] 296591009335 catalytic site [active] 296591009336 putative metal binding site [ion binding]; other site 296591009337 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 296591009338 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 296591009339 substrate binding site [chemical binding]; other site 296591009340 catalytic Zn binding site [ion binding]; other site 296591009341 NAD binding site [chemical binding]; other site 296591009342 structural Zn binding site [ion binding]; other site 296591009343 dimer interface [polypeptide binding]; other site 296591009344 putative metal dependent hydrolase; Provisional; Region: PRK11598 296591009345 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 296591009346 Sulfatase; Region: Sulfatase; cl10460 296591009347 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 296591009348 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591009349 substrate binding pocket [chemical binding]; other site 296591009350 membrane-bound complex binding site; other site 296591009351 hinge residues; other site 296591009352 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 296591009353 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 296591009354 dimer interface [polypeptide binding]; other site 296591009355 conserved gate region; other site 296591009356 putative PBP binding loops; other site 296591009357 ABC-ATPase subunit interface; other site 296591009358 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 296591009359 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 296591009360 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591009361 Coenzyme A binding pocket [chemical binding]; other site 296591009362 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 296591009363 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 296591009364 FeS/SAM binding site; other site 296591009365 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 296591009366 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 296591009367 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; cl01562 296591009368 Acyltransferase family; Region: Acyl_transf_3; pfam01757 296591009369 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 296591009370 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 296591009371 FMN binding site [chemical binding]; other site 296591009372 substrate binding site [chemical binding]; other site 296591009373 putative catalytic residue [active] 296591009374 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 296591009375 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 296591009376 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591009377 active site 296591009378 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 296591009379 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 296591009380 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 296591009381 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 296591009382 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 296591009383 Ligand binding site [chemical binding]; other site 296591009384 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 296591009385 Mechanosensitive ion channel; Region: MS_channel; pfam00924 296591009386 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 296591009387 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 296591009388 MoxR-like ATPases [General function prediction only]; Region: COG0714 296591009389 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 296591009390 Walker A motif; other site 296591009391 ATP binding site [chemical binding]; other site 296591009392 Walker B motif; other site 296591009393 arginine finger; other site 296591009394 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 296591009395 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 296591009396 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 296591009397 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 296591009398 Transglycosylase SLT domain; Region: SLT_2; pfam13406 296591009399 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 296591009400 N-acetyl-D-glucosamine binding site [chemical binding]; other site 296591009401 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 296591009402 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 296591009403 ligand binding site [chemical binding]; other site 296591009404 flexible hinge region; other site 296591009405 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 296591009406 YceI-like domain; Region: YceI; cl01001 296591009407 YceI-like domain; Region: YceI; cl01001 296591009408 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 296591009409 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 296591009410 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 296591009411 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 296591009412 Uncharacterized conserved protein [Function unknown]; Region: COG2308 296591009413 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 296591009414 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 296591009415 Competence protein; Region: Competence; cl00471 296591009416 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 296591009417 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 296591009418 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 296591009419 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 296591009420 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 296591009421 Uncharacterized conserved protein [Function unknown]; Region: COG2308 296591009422 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 296591009423 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 296591009424 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 296591009425 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 296591009426 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 296591009427 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 296591009428 homotrimer interaction site [polypeptide binding]; other site 296591009429 putative active site [active] 296591009430 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 296591009431 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 296591009432 CAP-like domain; other site 296591009433 active site 296591009434 primary dimer interface [polypeptide binding]; other site 296591009435 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 296591009436 N-acetyl-D-glucosamine binding site [chemical binding]; other site 296591009437 catalytic residue [active] 296591009438 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 296591009439 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 296591009440 ATP binding site [chemical binding]; other site 296591009441 Mg2+ binding site [ion binding]; other site 296591009442 G-X-G motif; other site 296591009443 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 296591009444 anchoring element; other site 296591009445 dimer interface [polypeptide binding]; other site 296591009446 ATP binding site [chemical binding]; other site 296591009447 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 296591009448 active site 296591009449 metal binding site [ion binding]; metal-binding site 296591009450 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 296591009451 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 296591009452 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 296591009453 Major Facilitator Superfamily; Region: MFS_1; pfam07690 296591009454 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 296591009455 putative substrate translocation pore; other site 296591009456 short chain dehydrogenase; Provisional; Region: PRK06181 296591009457 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591009458 NAD(P) binding site [chemical binding]; other site 296591009459 active site 296591009460 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 296591009461 S-adenosylmethionine binding site [chemical binding]; other site 296591009462 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 296591009463 dihydrodipicolinate synthase; Region: dapA; TIGR00674 296591009464 dimer interface [polypeptide binding]; other site 296591009465 active site 296591009466 catalytic residue [active] 296591009467 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 296591009468 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 296591009469 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 296591009470 Uncharacterized conserved protein [Function unknown]; Region: COG2850 296591009471 JmjC domain, hydroxylase; Region: JmjC; cl15814 296591009472 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 296591009473 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 296591009474 trimer interface [polypeptide binding]; other site 296591009475 active site 296591009476 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 296591009477 Flavoprotein; Region: Flavoprotein; cl08021 296591009478 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 296591009479 CTP synthetase; Validated; Region: pyrG; PRK05380 296591009480 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 296591009481 Catalytic site [active] 296591009482 active site 296591009483 UTP binding site [chemical binding]; other site 296591009484 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 296591009485 active site 296591009486 putative oxyanion hole; other site 296591009487 catalytic triad [active] 296591009488 NeuB family; Region: NeuB; cl00496 296591009489 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 296591009490 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 296591009491 enolase; Provisional; Region: eno; PRK00077 296591009492 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 296591009493 dimer interface [polypeptide binding]; other site 296591009494 metal binding site [ion binding]; metal-binding site 296591009495 substrate binding pocket [chemical binding]; other site 296591009496 Septum formation initiator; Region: DivIC; cl11433 296591009497 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 296591009498 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 296591009499 dimerization interface [polypeptide binding]; other site 296591009500 domain crossover interface; other site 296591009501 redox-dependent activation switch; other site 296591009502 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 296591009503 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 296591009504 trimer interface [polypeptide binding]; other site 296591009505 putative metal binding site [ion binding]; other site 296591009506 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 296591009507 dinuclear metal binding motif [ion binding]; other site 296591009508 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 296591009509 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591009510 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 296591009511 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 296591009512 Int/Topo IB signature motif; other site 296591009513 active site 296591009514 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 296591009515 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591009516 Predicted ATPase [General function prediction only]; Region: COG3899 296591009517 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 296591009518 DNA binding residues [nucleotide binding] 296591009519 dimerization interface [polypeptide binding]; other site 296591009520 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591009521 NMT1-like family; Region: NMT1_2; cl15260 296591009522 Membrane transport protein; Region: Mem_trans; cl09117 296591009523 Helix-turn-helix domains; Region: HTH; cl00088 296591009524 Winged helix-turn helix; Region: HTH_29; pfam13551 296591009525 Helix-turn-helix domains; Region: HTH; cl00088 296591009526 Integrase core domain; Region: rve; cl01316 296591009527 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 296591009528 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 296591009529 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 296591009530 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 296591009531 AMIN domain; Region: AMIN; pfam11741 296591009532 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 296591009533 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 296591009534 active site 296591009535 metal binding site [ion binding]; metal-binding site 296591009536 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 296591009537 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 296591009538 putative substrate binding site [chemical binding]; other site 296591009539 putative ATP binding site [chemical binding]; other site 296591009540 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 296591009541 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 296591009542 ligand binding site [chemical binding]; other site 296591009543 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 296591009544 TM-ABC transporter signature motif; other site 296591009545 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591009546 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 296591009547 Walker A/P-loop; other site 296591009548 ATP binding site [chemical binding]; other site 296591009549 Q-loop/lid; other site 296591009550 ABC transporter signature motif; other site 296591009551 Walker B; other site 296591009552 D-loop; other site 296591009553 H-loop/switch region; other site 296591009554 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 296591009555 Helix-turn-helix domains; Region: HTH; cl00088 296591009556 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 296591009557 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 296591009558 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 296591009559 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 296591009560 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 296591009561 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 296591009562 ATP binding site [chemical binding]; other site 296591009563 Mg2+ binding site [ion binding]; other site 296591009564 G-X-G motif; other site 296591009565 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 296591009566 ATP binding site [chemical binding]; other site 296591009567 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 296591009568 Protein of unknown function (DUF3089); Region: DUF3089; pfam11288 296591009569 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 296591009570 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 296591009571 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 296591009572 putative substrate translocation pore; other site 296591009573 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 296591009574 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591009575 Conserved TM helix; Region: TM_helix; pfam05552 296591009576 Conserved TM helix; Region: TM_helix; pfam05552 296591009577 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 296591009578 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 296591009579 Walker A/P-loop; other site 296591009580 ATP binding site [chemical binding]; other site 296591009581 Q-loop/lid; other site 296591009582 ABC transporter signature motif; other site 296591009583 Walker B; other site 296591009584 D-loop; other site 296591009585 H-loop/switch region; other site 296591009586 serine racemase; Region: PLN02970 296591009587 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 296591009588 tetramer interface [polypeptide binding]; other site 296591009589 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591009590 catalytic residue [active] 296591009591 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 296591009592 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 296591009593 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591009594 catalytic residue [active] 296591009595 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 296591009596 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 296591009597 dimer interface [polypeptide binding]; other site 296591009598 conserved gate region; other site 296591009599 putative PBP binding loops; other site 296591009600 ABC-ATPase subunit interface; other site 296591009601 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 296591009602 dimer interface [polypeptide binding]; other site 296591009603 conserved gate region; other site 296591009604 putative PBP binding loops; other site 296591009605 ABC-ATPase subunit interface; other site 296591009606 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 296591009607 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591009608 Walker A/P-loop; other site 296591009609 ATP binding site [chemical binding]; other site 296591009610 Q-loop/lid; other site 296591009611 ABC transporter signature motif; other site 296591009612 Walker B; other site 296591009613 D-loop; other site 296591009614 H-loop/switch region; other site 296591009615 TOBE domain; Region: TOBE_2; cl01440 296591009616 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 296591009617 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591009618 DNA-binding site [nucleotide binding]; DNA binding site 296591009619 FCD domain; Region: FCD; cl11656 296591009620 Sulfatase; Region: Sulfatase; cl10460 296591009621 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 296591009622 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591009623 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 296591009624 NAD(P) binding site [chemical binding]; other site 296591009625 catalytic residues [active] 296591009626 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 296591009627 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 296591009628 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591009629 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591009630 FAD dependent oxidoreductase; Region: DAO; pfam01266 296591009631 FtsX-like permease family; Region: FtsX; cl15850 296591009632 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 296591009633 Ligand Binding Site [chemical binding]; other site 296591009634 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 296591009635 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 296591009636 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 296591009637 homotrimer interaction site [polypeptide binding]; other site 296591009638 putative active site [active] 296591009639 Helix-turn-helix domains; Region: HTH; cl00088 296591009640 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 296591009641 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 296591009642 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 296591009643 putative substrate translocation pore; other site 296591009644 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 296591009645 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 296591009646 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 296591009647 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 296591009648 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 296591009649 Helix-turn-helix domains; Region: HTH; cl00088 296591009650 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 296591009651 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 296591009652 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 296591009653 Walker A/P-loop; other site 296591009654 ATP binding site [chemical binding]; other site 296591009655 Q-loop/lid; other site 296591009656 ABC transporter signature motif; other site 296591009657 Walker B; other site 296591009658 D-loop; other site 296591009659 H-loop/switch region; other site 296591009660 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 296591009661 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 296591009662 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 296591009663 NAD(P) binding site [chemical binding]; other site 296591009664 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 296591009665 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 296591009666 dimer interface [polypeptide binding]; other site 296591009667 ADP-ribose binding site [chemical binding]; other site 296591009668 active site 296591009669 nudix motif; other site 296591009670 metal binding site [ion binding]; metal-binding site 296591009671 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 296591009672 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 296591009673 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 296591009674 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 296591009675 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 296591009676 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 296591009677 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 296591009678 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 296591009679 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 296591009680 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 296591009681 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 296591009682 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 296591009683 4Fe-4S binding domain; Region: Fer4; cl02805 296591009684 4Fe-4S binding domain; Region: Fer4; cl02805 296591009685 NADH dehydrogenase; Region: NADHdh; cl00469 296591009686 NADH dehydrogenase subunit G; Validated; Region: PRK09129 296591009687 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 296591009688 catalytic loop [active] 296591009689 iron binding site [ion binding]; other site 296591009690 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 296591009691 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 296591009692 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 296591009693 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 296591009694 SLBB domain; Region: SLBB; pfam10531 296591009695 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 296591009696 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 296591009697 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 296591009698 putative dimer interface [polypeptide binding]; other site 296591009699 [2Fe-2S] cluster binding site [ion binding]; other site 296591009700 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 296591009701 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 296591009702 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 296591009703 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 296591009704 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 296591009705 Preprotein translocase SecG subunit; Region: SecG; cl09123 296591009706 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 296591009707 dimer interface [polypeptide binding]; other site 296591009708 substrate binding site [chemical binding]; other site 296591009709 catalytic triad [active] 296591009710 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 296591009711 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 296591009712 NAD(P) binding site [chemical binding]; other site 296591009713 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 296591009714 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 296591009715 RNase E interface [polypeptide binding]; other site 296591009716 trimer interface [polypeptide binding]; other site 296591009717 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 296591009718 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 296591009719 RNase E interface [polypeptide binding]; other site 296591009720 trimer interface [polypeptide binding]; other site 296591009721 active site 296591009722 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 296591009723 putative nucleic acid binding region [nucleotide binding]; other site 296591009724 G-X-X-G motif; other site 296591009725 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 296591009726 RNA binding site [nucleotide binding]; other site 296591009727 domain interface; other site 296591009728 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 296591009729 16S/18S rRNA binding site [nucleotide binding]; other site 296591009730 S13e-L30e interaction site [polypeptide binding]; other site 296591009731 25S rRNA binding site [nucleotide binding]; other site 296591009732 aspartate aminotransferase; Provisional; Region: PRK06108 296591009733 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 296591009734 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591009735 homodimer interface [polypeptide binding]; other site 296591009736 catalytic residue [active] 296591009737 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591009738 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 296591009739 putative ligand binding site [chemical binding]; other site 296591009740 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 296591009741 putative dimer interface [polypeptide binding]; other site 296591009742 UGMP family protein; Validated; Region: PRK09604 296591009743 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 296591009744 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 296591009745 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; cl09944 296591009746 active site 296591009747 phosphorylation site [posttranslational modification] 296591009748 intermolecular recognition site; other site 296591009749 dimerization interface [polypeptide binding]; other site 296591009750 ANTAR domain; Region: ANTAR; cl04297 296591009751 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 296591009752 NMT1-like family; Region: NMT1_2; cl15260 296591009753 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 296591009754 dimer interface [polypeptide binding]; other site 296591009755 conserved gate region; other site 296591009756 putative PBP binding loops; other site 296591009757 ABC-ATPase subunit interface; other site 296591009758 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 296591009759 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 296591009760 Walker A/P-loop; other site 296591009761 ATP binding site [chemical binding]; other site 296591009762 Q-loop/lid; other site 296591009763 ABC transporter signature motif; other site 296591009764 Walker B; other site 296591009765 D-loop; other site 296591009766 H-loop/switch region; other site 296591009767 PAS domain; Region: PAS_9; pfam13426 296591009768 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 296591009769 putative binding surface; other site 296591009770 active site 296591009771 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 296591009772 ATP binding site [chemical binding]; other site 296591009773 Mg2+ binding site [ion binding]; other site 296591009774 G-X-G motif; other site 296591009775 Response regulator receiver domain; Region: Response_reg; pfam00072 296591009776 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 296591009777 active site 296591009778 phosphorylation site [posttranslational modification] 296591009779 intermolecular recognition site; other site 296591009780 dimerization interface [polypeptide binding]; other site 296591009781 Chemotaxis phosphatase CheX; Region: CheX; cl15816 296591009782 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 296591009783 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 296591009784 putative substrate translocation pore; other site 296591009785 Protein phosphatase 2C; Region: PP2C; pfam00481 296591009786 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 296591009787 active site 296591009788 Catalytic domain of Protein Kinases; Region: PKc; cd00180 296591009789 active site 296591009790 ATP binding site [chemical binding]; other site 296591009791 substrate binding site [chemical binding]; other site 296591009792 activation loop (A-loop); other site 296591009793 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 296591009794 active site 296591009795 phosphorylation site [posttranslational modification] 296591009796 intermolecular recognition site; other site 296591009797 dimerization interface [polypeptide binding]; other site 296591009798 ANTAR domain; Region: ANTAR; cl04297 296591009799 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 296591009800 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 296591009801 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 296591009802 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591009803 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 296591009804 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 296591009805 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 296591009806 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 296591009807 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 296591009808 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 296591009809 [2Fe-2S] cluster binding site [ion binding]; other site 296591009810 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 296591009811 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 296591009812 [4Fe-4S] binding site [ion binding]; other site 296591009813 molybdopterin cofactor binding site; other site 296591009814 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 296591009815 molybdopterin cofactor binding site; other site 296591009816 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 296591009817 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 296591009818 glycosyl transferase family protein; Provisional; Region: PRK08136 296591009819 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 296591009820 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 296591009821 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 296591009822 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 296591009823 HI0933-like protein; Region: HI0933_like; pfam03486 296591009824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591009825 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591009826 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 296591009827 GatB domain; Region: GatB_Yqey; cl11497 296591009828 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 296591009829 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 296591009830 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 296591009831 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 296591009832 Protein of unknown function (DUF615); Region: DUF615; cl01147 296591009833 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 296591009834 MPT binding site; other site 296591009835 trimer interface [polypeptide binding]; other site 296591009836 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 296591009837 Amidase; Region: Amidase; cl11426 296591009838 serine O-acetyltransferase; Region: cysE; TIGR01172 296591009839 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 296591009840 trimer interface [polypeptide binding]; other site 296591009841 active site 296591009842 substrate binding site [chemical binding]; other site 296591009843 CoA binding site [chemical binding]; other site 296591009844 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 296591009845 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 296591009846 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 296591009847 active site 296591009848 dimerization interface [polypeptide binding]; other site 296591009849 sensory histidine kinase AtoS; Provisional; Region: PRK11360 296591009850 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 296591009851 dimer interface [polypeptide binding]; other site 296591009852 phosphorylation site [posttranslational modification] 296591009853 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 296591009854 ATP binding site [chemical binding]; other site 296591009855 Mg2+ binding site [ion binding]; other site 296591009856 G-X-G motif; other site 296591009857 Phosphopantetheine attachment site; Region: PP-binding; cl09936 296591009858 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 296591009859 active site 2 [active] 296591009860 dimer interface [polypeptide binding]; other site 296591009861 active site 1 [active] 296591009862 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 296591009863 putative acyl-acceptor binding pocket; other site 296591009864 Predicted exporter [General function prediction only]; Region: COG4258 296591009865 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 296591009866 NodB motif; other site 296591009867 active site 296591009868 catalytic site [active] 296591009869 metal binding site [ion binding]; metal-binding site 296591009870 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 296591009871 active site 296591009872 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 296591009873 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 296591009874 putative active site 1 [active] 296591009875 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591009876 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591009877 NAD(P) binding site [chemical binding]; other site 296591009878 active site 296591009879 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 296591009880 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 296591009881 S-adenosylmethionine binding site [chemical binding]; other site 296591009882 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 296591009883 Ligand binding site; other site 296591009884 Putative Catalytic site; other site 296591009885 DXD motif; other site 296591009886 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 296591009887 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 296591009888 putative acyl-acceptor binding pocket; other site 296591009889 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 296591009890 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591009891 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591009892 DNA-sulfur modification-associated; Region: DndB; cl14002 296591009893 MutS domain I; Region: MutS_I; pfam01624 296591009894 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591009895 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 296591009896 Walker A/P-loop; other site 296591009897 ATP binding site [chemical binding]; other site 296591009898 Q-loop/lid; other site 296591009899 ABC transporter signature motif; other site 296591009900 Walker B; other site 296591009901 D-loop; other site 296591009902 H-loop/switch region; other site 296591009903 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591009904 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 296591009905 Walker A/P-loop; other site 296591009906 ATP binding site [chemical binding]; other site 296591009907 Q-loop/lid; other site 296591009908 ABC transporter signature motif; other site 296591009909 Walker B; other site 296591009910 D-loop; other site 296591009911 H-loop/switch region; other site 296591009912 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 296591009913 TM-ABC transporter signature motif; other site 296591009914 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 296591009915 TM-ABC transporter signature motif; other site 296591009916 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591009917 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 296591009918 putative ligand binding site [chemical binding]; other site 296591009919 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 296591009920 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 296591009921 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591009922 6-hydroxyhexanoate dehydrogenase (HHD) catalyzes the oxidation of 6-hydroxyhexanoate to 6-oxohexanoate; Region: HHD; cd08191 296591009923 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 296591009924 putative active site [active] 296591009925 metal binding site [ion binding]; metal-binding site 296591009926 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591009927 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591009928 DNA-binding site [nucleotide binding]; DNA binding site 296591009929 FCD domain; Region: FCD; cl11656 296591009930 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 296591009931 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 296591009932 non-specific DNA binding site [nucleotide binding]; other site 296591009933 salt bridge; other site 296591009934 sequence-specific DNA binding site [nucleotide binding]; other site 296591009935 Cupin domain; Region: Cupin_2; cl09118 296591009936 allantoate amidohydrolase; Reviewed; Region: PRK12893 296591009937 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 296591009938 active site 296591009939 metal binding site [ion binding]; metal-binding site 296591009940 dimer interface [polypeptide binding]; other site 296591009941 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 296591009942 Amidase; Region: Amidase; cl11426 296591009943 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591009944 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 296591009945 Walker A/P-loop; other site 296591009946 ATP binding site [chemical binding]; other site 296591009947 Q-loop/lid; other site 296591009948 ABC transporter signature motif; other site 296591009949 Walker B; other site 296591009950 D-loop; other site 296591009951 H-loop/switch region; other site 296591009952 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591009953 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 296591009954 Walker A/P-loop; other site 296591009955 ATP binding site [chemical binding]; other site 296591009956 Q-loop/lid; other site 296591009957 ABC transporter signature motif; other site 296591009958 Walker B; other site 296591009959 D-loop; other site 296591009960 H-loop/switch region; other site 296591009961 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 296591009962 TM-ABC transporter signature motif; other site 296591009963 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 296591009964 TM-ABC transporter signature motif; other site 296591009965 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 296591009966 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 296591009967 dimerization interface [polypeptide binding]; other site 296591009968 ligand binding site [chemical binding]; other site 296591009969 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 296591009970 MutS domain I; Region: MutS_I; pfam01624 296591009971 MutS domain II; Region: MutS_II; pfam05188 296591009972 MutS family domain IV; Region: MutS_IV; pfam05190 296591009973 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591009974 Walker A/P-loop; other site 296591009975 ATP binding site [chemical binding]; other site 296591009976 Q-loop/lid; other site 296591009977 ABC transporter signature motif; other site 296591009978 Walker B; other site 296591009979 D-loop; other site 296591009980 H-loop/switch region; other site 296591009981 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 296591009982 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 296591009983 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591009984 Transposase; Region: DEDD_Tnp_IS110; pfam01548 296591009985 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 296591009986 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 296591009987 Transcriptional regulator [Transcription]; Region: IclR; COG1414 296591009988 Helix-turn-helix domains; Region: HTH; cl00088 296591009989 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591009990 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591009991 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591009992 NAD(P) binding site [chemical binding]; other site 296591009993 active site 296591009994 Cupin domain; Region: Cupin_2; cl09118 296591009995 Bacitracin resistance protein BacA; Region: BacA; cl00858 296591009996 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 296591009997 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591009998 Helix-turn-helix domains; Region: HTH; cl00088 296591009999 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 296591010000 putative dimerization interface [polypeptide binding]; other site 296591010001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591010002 NMT1-like family; Region: NMT1_2; cl15260 296591010003 DoxX; Region: DoxX; cl00976 296591010004 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 296591010005 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 296591010006 active site 296591010007 HIGH motif; other site 296591010008 nucleotide binding site [chemical binding]; other site 296591010009 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 296591010010 KMSKS motif; other site 296591010011 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 296591010012 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591010013 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 296591010014 dimerization interface [polypeptide binding]; other site 296591010015 putative DNA binding site [nucleotide binding]; other site 296591010016 putative Zn2+ binding site [ion binding]; other site 296591010017 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 296591010018 DNA-binding site [nucleotide binding]; DNA binding site 296591010019 RNA-binding motif; other site 296591010020 Excalibur calcium-binding domain; Region: Excalibur; cl05460 296591010021 Restriction endonuclease; Region: Mrr_cat; cl00516 296591010022 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 296591010023 acetyl-CoA synthetase; Provisional; Region: PRK00174 296591010024 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 296591010025 AMP-binding enzyme; Region: AMP-binding; cl15778 296591010026 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591010027 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 296591010028 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 296591010029 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 296591010030 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 296591010031 dimer interface [polypeptide binding]; other site 296591010032 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591010033 catalytic residue [active] 296591010034 Putative hydrophobic ligand-binding SRPBCC domain of the Hsp90 co-chaperone Aha1 and related proteins; Region: SRPBCC_Aha1; cd08892 296591010035 putative hydrophobic ligand binding site [chemical binding]; other site 296591010036 putative Hsp90 binding residues [polypeptide binding]; other site 296591010037 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591010038 Phospholipid methyltransferase; Region: PEMT; cl00763 296591010039 Protein required for attachment to host cells; Region: Host_attach; cl02398 296591010040 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 296591010041 Ligand Binding Site [chemical binding]; other site 296591010042 thioredoxin 2; Provisional; Region: PRK10996 296591010043 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 296591010044 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 296591010045 catalytic residues [active] 296591010046 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591010047 DNA-binding site [nucleotide binding]; DNA binding site 296591010048 UTRA domain; Region: UTRA; cl01230 296591010049 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591010050 NMT1-like family; Region: NMT1_2; cl15260 296591010051 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 296591010052 active site 296591010053 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 296591010054 Helix-turn-helix domains; Region: HTH; cl00088 296591010055 Predicted amidohydrolase [General function prediction only]; Region: COG0388 296591010056 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 296591010057 putative active site [active] 296591010058 catalytic triad [active] 296591010059 putative dimer interface [polypeptide binding]; other site 296591010060 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 296591010061 FAD binding domain; Region: FAD_binding_4; pfam01565 296591010062 Berberine and berberine like; Region: BBE; pfam08031 296591010063 Ion channel; Region: Ion_trans_2; cl11596 296591010064 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591010065 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 296591010066 Walker A/P-loop; other site 296591010067 ATP binding site [chemical binding]; other site 296591010068 Q-loop/lid; other site 296591010069 ABC transporter signature motif; other site 296591010070 Walker B; other site 296591010071 D-loop; other site 296591010072 H-loop/switch region; other site 296591010073 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591010074 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 296591010075 Walker A/P-loop; other site 296591010076 ATP binding site [chemical binding]; other site 296591010077 Q-loop/lid; other site 296591010078 ABC transporter signature motif; other site 296591010079 Walker B; other site 296591010080 D-loop; other site 296591010081 H-loop/switch region; other site 296591010082 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 296591010083 TM-ABC transporter signature motif; other site 296591010084 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 296591010085 TM-ABC transporter signature motif; other site 296591010086 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591010087 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 296591010088 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 296591010089 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 296591010090 FMN-binding pocket [chemical binding]; other site 296591010091 flavin binding motif; other site 296591010092 phosphate binding motif [ion binding]; other site 296591010093 beta-alpha-beta structure motif; other site 296591010094 NAD binding pocket [chemical binding]; other site 296591010095 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 296591010096 catalytic loop [active] 296591010097 iron binding site [ion binding]; other site 296591010098 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591010099 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591010100 DNA-binding site [nucleotide binding]; DNA binding site 296591010101 FCD domain; Region: FCD; cl11656 296591010102 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 296591010103 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 296591010104 iron-sulfur cluster [ion binding]; other site 296591010105 [2Fe-2S] cluster binding site [ion binding]; other site 296591010106 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 296591010107 alpha subunit interface [polypeptide binding]; other site 296591010108 active site 296591010109 substrate binding site [chemical binding]; other site 296591010110 Fe binding site [ion binding]; other site 296591010111 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 296591010112 substrate binding site [chemical binding]; other site 296591010113 THF binding site; other site 296591010114 zinc-binding site [ion binding]; other site 296591010115 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 296591010116 dinuclear metal binding motif [ion binding]; other site 296591010117 RNA polymerase sigma factor; Provisional; Region: PRK11922 296591010118 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 296591010119 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 296591010120 DNA binding residues [nucleotide binding] 296591010121 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 296591010122 FAD binding pocket [chemical binding]; other site 296591010123 conserved FAD binding motif [chemical binding]; other site 296591010124 phosphate binding motif [ion binding]; other site 296591010125 beta-alpha-beta structure motif; other site 296591010126 NAD binding pocket [chemical binding]; other site 296591010127 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 296591010128 AMP-binding enzyme; Region: AMP-binding; cl15778 296591010129 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 296591010130 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 296591010131 putative acyl-acceptor binding pocket; other site 296591010132 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 296591010133 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 296591010134 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 296591010135 Major Facilitator Superfamily; Region: MFS_1; pfam07690 296591010136 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 296591010137 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 296591010138 GTP/Mg2+ binding site [chemical binding]; other site 296591010139 G4 box; other site 296591010140 G5 box; other site 296591010141 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591010142 G1 box; other site 296591010143 Switch I region; other site 296591010144 G2 box; other site 296591010145 G3 box; other site 296591010146 Switch II region; other site 296591010147 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 296591010148 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl15791 296591010149 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 296591010150 Major Facilitator Superfamily; Region: MFS_1; pfam07690 296591010151 putative substrate translocation pore; other site 296591010152 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 296591010153 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591010154 TspO/MBR family; Region: TspO_MBR; cl01379 296591010155 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 296591010156 GAF domain; Region: GAF; cl15785 296591010157 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 296591010158 Walker A motif; other site 296591010159 ATP binding site [chemical binding]; other site 296591010160 Walker B motif; other site 296591010161 Helix-turn-helix domains; Region: HTH; cl00088 296591010162 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 296591010163 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 296591010164 heme-binding site [chemical binding]; other site 296591010165 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 296591010166 FAD binding pocket [chemical binding]; other site 296591010167 FAD binding motif [chemical binding]; other site 296591010168 phosphate binding motif [ion binding]; other site 296591010169 beta-alpha-beta structure motif; other site 296591010170 NAD binding pocket [chemical binding]; other site 296591010171 Heme binding pocket [chemical binding]; other site 296591010172 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 296591010173 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 296591010174 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 296591010175 metal binding site [ion binding]; metal-binding site 296591010176 putative dimer interface [polypeptide binding]; other site 296591010177 NMT1-like family; Region: NMT1_2; cl15260 296591010178 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 296591010179 Helix-turn-helix domains; Region: HTH; cl00088 296591010180 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 296591010181 putative effector binding pocket; other site 296591010182 dimerization interface [polypeptide binding]; other site 296591010183 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 296591010184 classical (c) SDRs; Region: SDR_c; cd05233 296591010185 NAD(P) binding site [chemical binding]; other site 296591010186 active site 296591010187 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 296591010188 active site 1 [active] 296591010189 dimer interface [polypeptide binding]; other site 296591010190 hexamer interface [polypeptide binding]; other site 296591010191 active site 2 [active] 296591010192 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 296591010193 Transcriptional regulators [Transcription]; Region: PurR; COG1609 296591010194 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 296591010195 DNA binding site [nucleotide binding] 296591010196 domain linker motif; other site 296591010197 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 296591010198 putative dimerization interface [polypeptide binding]; other site 296591010199 putative ligand binding site [chemical binding]; other site 296591010200 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 296591010201 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 296591010202 putative active site [active] 296591010203 catalytic residue [active] 296591010204 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591010205 NMT1-like family; Region: NMT1_2; cl15260 296591010206 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 296591010207 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 296591010208 active site 296591010209 tetramer interface [polypeptide binding]; other site 296591010210 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 296591010211 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591010212 NAD(P) binding site [chemical binding]; other site 296591010213 catalytic residues [active] 296591010214 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 296591010215 putative phosphate binding site [ion binding]; other site 296591010216 putative catalytic site [active] 296591010217 active site 296591010218 metal binding site A [ion binding]; metal-binding site 296591010219 DNA binding site [nucleotide binding] 296591010220 putative AP binding site [nucleotide binding]; other site 296591010221 putative metal binding site B [ion binding]; other site 296591010222 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 296591010223 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 296591010224 FMN binding site [chemical binding]; other site 296591010225 active site 296591010226 catalytic residues [active] 296591010227 substrate binding site [chemical binding]; other site 296591010228 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 296591010229 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 296591010230 S-adenosylmethionine binding site [chemical binding]; other site 296591010231 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 296591010232 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 296591010233 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 296591010234 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 296591010235 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 296591010236 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 296591010237 transcriptional regulator; Provisional; Region: PRK10632 296591010238 Helix-turn-helix domains; Region: HTH; cl00088 296591010239 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 296591010240 putative effector binding pocket; other site 296591010241 putative dimerization interface [polypeptide binding]; other site 296591010242 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 296591010243 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 296591010244 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591010245 Coenzyme A binding pocket [chemical binding]; other site 296591010246 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 296591010247 catalytic loop [active] 296591010248 iron binding site [ion binding]; other site 296591010249 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 296591010250 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591010251 Coenzyme A binding pocket [chemical binding]; other site 296591010252 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591010253 Helix-turn-helix domains; Region: HTH; cl00088 296591010254 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 296591010255 dimerization interface [polypeptide binding]; other site 296591010256 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_7; cd03862 296591010257 putative active site [active] 296591010258 Zn binding site [ion binding]; other site 296591010259 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591010260 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591010261 Helix-turn-helix domains; Region: HTH; cl00088 296591010262 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 296591010263 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 296591010264 dimerization interface [polypeptide binding]; other site 296591010265 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591010266 NMT1-like family; Region: NMT1_2; cl15260 296591010267 Sulfatase; Region: Sulfatase; cl10460 296591010268 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 296591010269 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 296591010270 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591010271 DNA-binding site [nucleotide binding]; DNA binding site 296591010272 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 296591010273 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591010274 homodimer interface [polypeptide binding]; other site 296591010275 catalytic residue [active] 296591010276 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 296591010277 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591010278 Helix-turn-helix domains; Region: HTH; cl00088 296591010279 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 296591010280 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 296591010281 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 296591010282 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 296591010283 short chain dehydrogenase; Provisional; Region: PRK06179 296591010284 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 296591010285 NADP binding site [chemical binding]; other site 296591010286 active site 296591010287 steroid binding site; other site 296591010288 Cytochrome c; Region: Cytochrom_C; cl11414 296591010289 Cytochrome c; Region: Cytochrom_C; cl11414 296591010290 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 296591010291 Cytochrome c; Region: Cytochrom_C; cl11414 296591010292 enterobactin exporter EntS; Provisional; Region: PRK10489 296591010293 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591010294 Helix-turn-helix domains; Region: HTH; cl00088 296591010295 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 296591010296 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 296591010297 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 296591010298 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 296591010299 Walker A/P-loop; other site 296591010300 ATP binding site [chemical binding]; other site 296591010301 Q-loop/lid; other site 296591010302 ABC transporter signature motif; other site 296591010303 Walker B; other site 296591010304 D-loop; other site 296591010305 H-loop/switch region; other site 296591010306 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 296591010307 ABC-2 type transporter; Region: ABC2_membrane; cl11417 296591010308 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 296591010309 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591010310 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 296591010311 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 296591010312 active site 296591010313 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 296591010314 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 296591010315 Ligand Binding Site [chemical binding]; other site 296591010316 Domain of unknown function (DUF427); Region: DUF427; cl00998 296591010317 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 296591010318 Cupin domain; Region: Cupin_2; cl09118 296591010319 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 296591010320 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591010321 Helix-turn-helix domains; Region: HTH; cl00088 296591010322 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 296591010323 substrate binding site [chemical binding]; other site 296591010324 methionine synthase; Provisional; Region: PRK01207 296591010325 THF binding site; other site 296591010326 zinc-binding site [ion binding]; other site 296591010327 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 296591010328 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 296591010329 YaeQ protein; Region: YaeQ; cl01913 296591010330 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 296591010331 AMP-binding enzyme; Region: AMP-binding; cl15778 296591010332 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591010333 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591010334 NMT1-like family; Region: NMT1_2; cl15260 296591010335 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591010336 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591010337 DNA-binding site [nucleotide binding]; DNA binding site 296591010338 FCD domain; Region: FCD; cl11656 296591010339 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591010340 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 296591010341 substrate binding pocket [chemical binding]; other site 296591010342 membrane-bound complex binding site; other site 296591010343 hinge residues; other site 296591010344 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 296591010345 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 296591010346 dimer interface [polypeptide binding]; other site 296591010347 conserved gate region; other site 296591010348 putative PBP binding loops; other site 296591010349 ABC-ATPase subunit interface; other site 296591010350 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 296591010351 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 296591010352 dimer interface [polypeptide binding]; other site 296591010353 conserved gate region; other site 296591010354 putative PBP binding loops; other site 296591010355 ABC-ATPase subunit interface; other site 296591010356 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 296591010357 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 296591010358 Walker A/P-loop; other site 296591010359 ATP binding site [chemical binding]; other site 296591010360 Q-loop/lid; other site 296591010361 ABC transporter signature motif; other site 296591010362 Walker B; other site 296591010363 D-loop; other site 296591010364 H-loop/switch region; other site 296591010365 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 296591010366 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 296591010367 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 296591010368 DNA binding residues [nucleotide binding] 296591010369 dimer interface [polypeptide binding]; other site 296591010370 putative metal binding site [ion binding]; other site 296591010371 EamA-like transporter family; Region: EamA; cl01037 296591010372 EamA-like transporter family; Region: EamA; cl01037 296591010373 Cation efflux family; Region: Cation_efflux; cl00316 296591010374 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 296591010375 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 296591010376 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 296591010377 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 296591010378 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 296591010379 Protein of unknown function, DUF; Region: DUF411; cl01142 296591010380 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 296591010381 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 296591010382 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 296591010383 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 296591010384 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 296591010385 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 296591010386 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 296591010387 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 296591010388 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 296591010389 DNA binding residues [nucleotide binding] 296591010390 dimer interface [polypeptide binding]; other site 296591010391 copper binding site [ion binding]; other site 296591010392 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 296591010393 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 296591010394 metal-binding site [ion binding] 296591010395 Nitrogen regulatory protein P-II; Region: P-II; cl00412 296591010396 Nitrogen regulatory protein P-II; Region: P-II; smart00938 296591010397 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 296591010398 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 296591010399 [2Fe-2S] cluster binding site [ion binding]; other site 296591010400 Cytochrome c; Region: Cytochrom_C; cl11414 296591010401 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 296591010402 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 296591010403 catalytic residues [active] 296591010404 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 296591010405 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 296591010406 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 296591010407 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 296591010408 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 296591010409 dimerization domain [polypeptide binding]; other site 296591010410 dimer interface [polypeptide binding]; other site 296591010411 catalytic residues [active] 296591010412 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 296591010413 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 296591010414 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 296591010415 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 296591010416 DsbD alpha interface [polypeptide binding]; other site 296591010417 catalytic residues [active] 296591010418 NMT1-like family; Region: NMT1_2; cl15260 296591010419 PAS domain S-box; Region: sensory_box; TIGR00229 296591010420 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 296591010421 putative active site [active] 296591010422 heme pocket [chemical binding]; other site 296591010423 PAS domain S-box; Region: sensory_box; TIGR00229 296591010424 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 296591010425 putative active site [active] 296591010426 heme pocket [chemical binding]; other site 296591010427 PAS domain S-box; Region: sensory_box; TIGR00229 296591010428 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 296591010429 putative active site [active] 296591010430 heme pocket [chemical binding]; other site 296591010431 PAS domain S-box; Region: sensory_box; TIGR00229 296591010432 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 296591010433 putative active site [active] 296591010434 heme pocket [chemical binding]; other site 296591010435 PAS domain S-box; Region: sensory_box; TIGR00229 296591010436 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 296591010437 putative active site [active] 296591010438 heme pocket [chemical binding]; other site 296591010439 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 296591010440 Histidine kinase; Region: HisKA_2; cl06527 296591010441 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 296591010442 Response regulator receiver domain; Region: Response_reg; pfam00072 296591010443 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 296591010444 active site 296591010445 phosphorylation site [posttranslational modification] 296591010446 intermolecular recognition site; other site 296591010447 dimerization interface [polypeptide binding]; other site 296591010448 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 296591010449 PAS domain; Region: PAS_9; pfam13426 296591010450 putative active site [active] 296591010451 heme pocket [chemical binding]; other site 296591010452 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 296591010453 dimer interface [polypeptide binding]; other site 296591010454 phosphorylation site [posttranslational modification] 296591010455 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 296591010456 ATP binding site [chemical binding]; other site 296591010457 Mg2+ binding site [ion binding]; other site 296591010458 G-X-G motif; other site 296591010459 Response regulator receiver domain; Region: Response_reg; pfam00072 296591010460 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 296591010461 active site 296591010462 phosphorylation site [posttranslational modification] 296591010463 intermolecular recognition site; other site 296591010464 dimerization interface [polypeptide binding]; other site 296591010465 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 296591010466 dimer interface [polypeptide binding]; other site 296591010467 phosphorylation site [posttranslational modification] 296591010468 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 296591010469 ATP binding site [chemical binding]; other site 296591010470 Mg2+ binding site [ion binding]; other site 296591010471 G-X-G motif; other site 296591010472 Response regulator receiver domain; Region: Response_reg; pfam00072 296591010473 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 296591010474 active site 296591010475 phosphorylation site [posttranslational modification] 296591010476 intermolecular recognition site; other site 296591010477 dimerization interface [polypeptide binding]; other site 296591010478 Response regulator receiver domain; Region: Response_reg; pfam00072 296591010479 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 296591010480 active site 296591010481 phosphorylation site [posttranslational modification] 296591010482 intermolecular recognition site; other site 296591010483 dimerization interface [polypeptide binding]; other site 296591010484 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 296591010485 Helix-turn-helix domains; Region: HTH; cl00088 296591010486 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 296591010487 putative dimerization interface [polypeptide binding]; other site 296591010488 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 296591010489 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 296591010490 putative active site pocket [active] 296591010491 metal binding site [ion binding]; metal-binding site 296591010492 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591010493 NMT1-like family; Region: NMT1_2; cl15260 296591010494 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 296591010495 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 296591010496 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 296591010497 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 296591010498 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 296591010499 ABC transporter; Region: ABC_tran_2; pfam12848 296591010500 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 296591010501 helicase 45; Provisional; Region: PTZ00424 296591010502 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 296591010503 ATP binding site [chemical binding]; other site 296591010504 Mg++ binding site [ion binding]; other site 296591010505 motif III; other site 296591010506 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 296591010507 nucleotide binding region [chemical binding]; other site 296591010508 ATP-binding site [chemical binding]; other site 296591010509 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591010510 NAD(P) binding site [chemical binding]; other site 296591010511 active site 296591010512 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 296591010513 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 296591010514 putative NAD(P) binding site [chemical binding]; other site 296591010515 catalytic Zn binding site [ion binding]; other site 296591010516 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 296591010517 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 296591010518 NADP binding site [chemical binding]; other site 296591010519 homodimer interface [polypeptide binding]; other site 296591010520 active site 296591010521 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 296591010522 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 296591010523 ATP-binding site [chemical binding]; other site 296591010524 Gluconate-6-phosphate binding site [chemical binding]; other site 296591010525 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 296591010526 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 296591010527 Walker A/P-loop; other site 296591010528 ATP binding site [chemical binding]; other site 296591010529 Q-loop/lid; other site 296591010530 ABC transporter signature motif; other site 296591010531 Walker B; other site 296591010532 D-loop; other site 296591010533 H-loop/switch region; other site 296591010534 TOBE domain; Region: TOBE_2; cl01440 296591010535 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 296591010536 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 296591010537 dimer interface [polypeptide binding]; other site 296591010538 conserved gate region; other site 296591010539 putative PBP binding loops; other site 296591010540 ABC-ATPase subunit interface; other site 296591010541 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 296591010542 dimer interface [polypeptide binding]; other site 296591010543 conserved gate region; other site 296591010544 putative PBP binding loops; other site 296591010545 ABC-ATPase subunit interface; other site 296591010546 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 296591010547 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 296591010548 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 296591010549 Transcriptional regulators [Transcription]; Region: FadR; COG2186 296591010550 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591010551 DNA-binding site [nucleotide binding]; DNA binding site 296591010552 FCD domain; Region: FCD; cl11656 296591010553 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 296591010554 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591010555 Dehydratase family; Region: ILVD_EDD; cl00340 296591010556 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 296591010557 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 296591010558 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 296591010559 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 296591010560 active site 296591010561 intersubunit interface [polypeptide binding]; other site 296591010562 catalytic residue [active] 296591010563 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591010564 classical (c) SDRs; Region: SDR_c; cd05233 296591010565 NAD(P) binding site [chemical binding]; other site 296591010566 active site 296591010567 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 296591010568 FOG: CBS domain [General function prediction only]; Region: COG0517 296591010569 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 296591010570 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 296591010571 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 296591010572 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 296591010573 MatE; Region: MatE; cl10513 296591010574 MatE; Region: MatE; cl10513 296591010575 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 296591010576 putative active site [active] 296591010577 putative catalytic site [active] 296591010578 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 296591010579 putative substrate translocation pore; other site 296591010580 Major Facilitator Superfamily; Region: MFS_1; pfam07690 296591010581 Transcriptional regulators [Transcription]; Region: MarR; COG1846 296591010582 Helix-turn-helix domains; Region: HTH; cl00088 296591010583 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 296591010584 CoenzymeA binding site [chemical binding]; other site 296591010585 subunit interaction site [polypeptide binding]; other site 296591010586 PHB binding site; other site 296591010587 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 296591010588 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 296591010589 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 296591010590 active site residues [active] 296591010591 dimer interface [polypeptide binding]; other site 296591010592 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 296591010593 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591010594 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 296591010595 dimer interface [polypeptide binding]; other site 296591010596 active site 296591010597 metal binding site [ion binding]; metal-binding site 296591010598 glutathione binding site [chemical binding]; other site 296591010599 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 296591010600 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 296591010601 active site 296591010602 intersubunit interface [polypeptide binding]; other site 296591010603 catalytic residue [active] 296591010604 Dehydratase family; Region: ILVD_EDD; cl00340 296591010605 6-phosphogluconate dehydratase; Region: edd; TIGR01196 296591010606 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 296591010607 ligand binding site [chemical binding]; other site 296591010608 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 296591010609 putative active site pocket [active] 296591010610 dimerization interface [polypeptide binding]; other site 296591010611 putative catalytic residue [active] 296591010612 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 296591010613 E-class dimer interface [polypeptide binding]; other site 296591010614 P-class dimer interface [polypeptide binding]; other site 296591010615 active site 296591010616 Cu2+ binding site [ion binding]; other site 296591010617 Zn2+ binding site [ion binding]; other site 296591010618 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 296591010619 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 296591010620 Ligand binding site; other site 296591010621 metal-binding site 296591010622 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 296591010623 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 296591010624 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 296591010625 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 296591010626 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 296591010627 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 296591010628 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 296591010629 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591010630 Helix-turn-helix domains; Region: HTH; cl00088 296591010631 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 296591010632 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 296591010633 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 296591010634 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 296591010635 catalytic center binding site [active] 296591010636 ATP binding site [chemical binding]; other site 296591010637 poly(A) polymerase; Region: pcnB; TIGR01942 296591010638 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 296591010639 active site 296591010640 NTP binding site [chemical binding]; other site 296591010641 metal binding triad [ion binding]; metal-binding site 296591010642 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 296591010643 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 296591010644 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 296591010645 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 296591010646 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 296591010647 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591010648 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 296591010649 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 296591010650 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 296591010651 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 296591010652 dimerization interface [polypeptide binding]; other site 296591010653 putative ATP binding site [chemical binding]; other site 296591010654 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 296591010655 Major Facilitator Superfamily; Region: MFS_1; pfam07690 296591010656 putative substrate translocation pore; other site 296591010657 Uncharacterized conserved protein [Function unknown]; Region: COG2912 296591010658 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 296591010659 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 296591010660 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 296591010661 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 296591010662 acetylornithine aminotransferase; Provisional; Region: PRK02627 296591010663 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 296591010664 inhibitor-cofactor binding pocket; inhibition site 296591010665 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591010666 catalytic residue [active] 296591010667 ornithine carbamoyltransferase; Provisional; Region: PRK00779 296591010668 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 296591010669 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591010670 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 296591010671 Helix-turn-helix domains; Region: HTH; cl00088 296591010672 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 296591010673 dimerization interface [polypeptide binding]; other site 296591010674 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591010675 NMT1-like family; Region: NMT1_2; cl15260 296591010676 SAF domain; Region: SAF; cl00555 296591010677 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 296591010678 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 296591010679 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 296591010680 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 296591010681 Sodium:solute symporter family; Region: SSF; cl00456 296591010682 Winged helix-turn helix; Region: HTH_29; pfam13551 296591010683 putative transposase OrfB; Reviewed; Region: PHA02517 296591010684 HTH-like domain; Region: HTH_21; pfam13276 296591010685 Integrase core domain; Region: rve; cl01316 296591010686 Integrase core domain; Region: rve_3; cl15866 296591010687 Helix-turn-helix domains; Region: HTH; cl00088 296591010688 Winged helix-turn helix; Region: HTH_29; pfam13551 296591010689 Winged helix-turn helix; Region: HTH_33; pfam13592 296591010690 Integrase core domain; Region: rve; cl01316 296591010691 classical (c) SDRs; Region: SDR_c; cd05233 296591010692 NAD(P) binding site [chemical binding]; other site 296591010693 active site 296591010694 Putative cyclase; Region: Cyclase; cl00814 296591010695 kynureninase; Region: kynureninase; TIGR01814 296591010696 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 296591010697 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591010698 catalytic residue [active] 296591010699 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 296591010700 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591010701 salicylate hydroxylase; Provisional; Region: PRK08163 296591010702 aconitate hydratase; Validated; Region: PRK09277 296591010703 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 296591010704 substrate binding site [chemical binding]; other site 296591010705 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 296591010706 ligand binding site [chemical binding]; other site 296591010707 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 296591010708 substrate binding site [chemical binding]; other site 296591010709 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 296591010710 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 296591010711 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 296591010712 substrate binding site [chemical binding]; other site 296591010713 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 296591010714 substrate binding site [chemical binding]; other site 296591010715 ligand binding site [chemical binding]; other site 296591010716 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 296591010717 malate dehydrogenase; Provisional; Region: PRK05442 296591010718 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 296591010719 NAD(P) binding site [chemical binding]; other site 296591010720 dimer interface [polypeptide binding]; other site 296591010721 malate binding site [chemical binding]; other site 296591010722 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 296591010723 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591010724 DNA-binding site [nucleotide binding]; DNA binding site 296591010725 UTRA domain; Region: UTRA; cl01230 296591010726 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 296591010727 Iron-sulfur protein interface; other site 296591010728 proximal quinone binding site [chemical binding]; other site 296591010729 SdhD (CybS) interface [polypeptide binding]; other site 296591010730 proximal heme binding site [chemical binding]; other site 296591010731 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 296591010732 SdhC subunit interface [polypeptide binding]; other site 296591010733 proximal heme binding site [chemical binding]; other site 296591010734 cardiolipin binding site; other site 296591010735 Iron-sulfur protein interface; other site 296591010736 proximal quinone binding site [chemical binding]; other site 296591010737 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 296591010738 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591010739 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 296591010740 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 296591010741 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 296591010742 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 296591010743 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 296591010744 dimer interface [polypeptide binding]; other site 296591010745 Citrate synthase; Region: Citrate_synt; pfam00285 296591010746 active site 296591010747 citrylCoA binding site [chemical binding]; other site 296591010748 NADH binding [chemical binding]; other site 296591010749 cationic pore residues; other site 296591010750 oxalacetate/citrate binding site [chemical binding]; other site 296591010751 coenzyme A binding site [chemical binding]; other site 296591010752 catalytic triad [active] 296591010753 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591010754 Helix-turn-helix domains; Region: HTH; cl00088 296591010755 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 296591010756 putative dimerization interface [polypeptide binding]; other site 296591010757 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 296591010758 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 296591010759 substrate binding site [chemical binding]; other site 296591010760 ligand binding site [chemical binding]; other site 296591010761 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 296591010762 substrate binding site [chemical binding]; other site 296591010763 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 296591010764 tartrate dehydrogenase; Provisional; Region: PRK08194 296591010765 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 296591010766 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591010767 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 296591010768 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 296591010769 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 296591010770 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 296591010771 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 296591010772 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 296591010773 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 296591010774 dimerization interface 3.5A [polypeptide binding]; other site 296591010775 active site 296591010776 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 296591010777 active site 296591010778 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 296591010779 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 296591010780 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591010781 catalytic residue [active] 296591010782 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 296591010783 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 296591010784 substrate binding site [chemical binding]; other site 296591010785 active site 296591010786 catalytic residues [active] 296591010787 heterodimer interface [polypeptide binding]; other site 296591010788 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 296591010789 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 296591010790 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 296591010791 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 296591010792 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 296591010793 dimer interface [polypeptide binding]; other site 296591010794 putative anticodon binding site; other site 296591010795 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 296591010796 motif 1; other site 296591010797 active site 296591010798 motif 2; other site 296591010799 motif 3; other site 296591010800 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 296591010801 active site 296591010802 nucleophile elbow; other site 296591010803 Protein of unknown function DUF45; Region: DUF45; cl00636 296591010804 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 296591010805 dimer interface [polypeptide binding]; other site 296591010806 conserved gate region; other site 296591010807 putative PBP binding loops; other site 296591010808 ABC-ATPase subunit interface; other site 296591010809 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 296591010810 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 296591010811 Walker A/P-loop; other site 296591010812 ATP binding site [chemical binding]; other site 296591010813 Q-loop/lid; other site 296591010814 ABC transporter signature motif; other site 296591010815 Walker B; other site 296591010816 D-loop; other site 296591010817 H-loop/switch region; other site 296591010818 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 296591010819 dimer interface [polypeptide binding]; other site 296591010820 conserved gate region; other site 296591010821 ABC-ATPase subunit interface; other site 296591010822 putative transposase OrfB; Reviewed; Region: PHA02517 296591010823 HTH-like domain; Region: HTH_21; pfam13276 296591010824 Integrase core domain; Region: rve; cl01316 296591010825 Integrase core domain; Region: rve_3; cl15866 296591010826 Winged helix-turn helix; Region: HTH_29; pfam13551 296591010827 NMT1-like family; Region: NMT1_2; cl15260 296591010828 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 296591010829 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 296591010830 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cl00541 296591010831 active site 296591010832 hydrophilic channel; other site 296591010833 dimerization interface [polypeptide binding]; other site 296591010834 catalytic residues [active] 296591010835 active site lid [active] 296591010836 Recombination protein O N terminal; Region: RecO_N; cl15812 296591010837 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 296591010838 Recombination protein O C terminal; Region: RecO_C; pfam02565 296591010839 GTPase Era; Reviewed; Region: era; PRK00089 296591010840 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 296591010841 G1 box; other site 296591010842 GTP/Mg2+ binding site [chemical binding]; other site 296591010843 Switch I region; other site 296591010844 G2 box; other site 296591010845 Switch II region; other site 296591010846 G3 box; other site 296591010847 G4 box; other site 296591010848 G5 box; other site 296591010849 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 296591010850 ribonuclease III; Reviewed; Region: rnc; PRK00102 296591010851 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 296591010852 dimerization interface [polypeptide binding]; other site 296591010853 active site 296591010854 metal binding site [ion binding]; metal-binding site 296591010855 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 296591010856 dsRNA binding site [nucleotide binding]; other site 296591010857 signal peptidase I; Provisional; Region: PRK10861 296591010858 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 296591010859 Catalytic site [active] 296591010860 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 296591010861 GTP-binding protein LepA; Provisional; Region: PRK05433 296591010862 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 296591010863 G1 box; other site 296591010864 putative GEF interaction site [polypeptide binding]; other site 296591010865 GTP/Mg2+ binding site [chemical binding]; other site 296591010866 Switch I region; other site 296591010867 G2 box; other site 296591010868 G3 box; other site 296591010869 Switch II region; other site 296591010870 G4 box; other site 296591010871 G5 box; other site 296591010872 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 296591010873 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 296591010874 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 296591010875 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 296591010876 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 296591010877 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 296591010878 protein binding site [polypeptide binding]; other site 296591010879 MucB/RseB family; Region: MucB_RseB; pfam03888 296591010880 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 296591010881 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 296591010882 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 296591010883 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 296591010884 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 296591010885 DNA binding residues [nucleotide binding] 296591010886 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 296591010887 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 296591010888 dimer interface [polypeptide binding]; other site 296591010889 active site 296591010890 Phosphopantetheine attachment site; Region: PP-binding; cl09936 296591010891 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 296591010892 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 296591010893 NAD(P) binding site [chemical binding]; other site 296591010894 homotetramer interface [polypeptide binding]; other site 296591010895 homodimer interface [polypeptide binding]; other site 296591010896 active site 296591010897 Acyl transferase domain; Region: Acyl_transf_1; cl08282 296591010898 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 296591010899 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 296591010900 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 296591010901 dimer interface [polypeptide binding]; other site 296591010902 active site 296591010903 CoA binding pocket [chemical binding]; other site 296591010904 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 296591010905 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 296591010906 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 296591010907 Maf-like protein; Region: Maf; pfam02545 296591010908 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 296591010909 active site 296591010910 dimer interface [polypeptide binding]; other site 296591010911 Predicted methyltransferases [General function prediction only]; Region: COG0313 296591010912 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 296591010913 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 296591010914 tandem repeat interface [polypeptide binding]; other site 296591010915 oligomer interface [polypeptide binding]; other site 296591010916 active site residues [active] 296591010917 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 296591010918 iron-sulfur cluster [ion binding]; other site 296591010919 [2Fe-2S] cluster binding site [ion binding]; other site 296591010920 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 296591010921 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 296591010922 motif II; other site 296591010923 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 296591010924 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 296591010925 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 296591010926 active site 296591010927 ribonuclease E; Reviewed; Region: rne; PRK10811 296591010928 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 296591010929 homodimer interface [polypeptide binding]; other site 296591010930 oligonucleotide binding site [chemical binding]; other site 296591010931 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 296591010932 HemY protein N-terminus; Region: HemY_N; pfam07219 296591010933 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 296591010934 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 296591010935 domain interfaces; other site 296591010936 active site 296591010937 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 296591010938 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 296591010939 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 296591010940 Putative glucoamylase; Region: Glycoamylase; pfam10091 296591010941 Putative carbohydrate binding domain; Region: CBM_X; cl05621 296591010942 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 296591010943 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 296591010944 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 296591010945 Putative carbohydrate binding domain; Region: CBM_X; cl05621 296591010946 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 296591010947 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 296591010948 Integral membrane protein TerC family; Region: TerC; cl10468 296591010949 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 296591010950 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 296591010951 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 296591010952 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 296591010953 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 296591010954 active site 296591010955 phosphorylation site [posttranslational modification] 296591010956 intermolecular recognition site; other site 296591010957 dimerization interface [polypeptide binding]; other site 296591010958 LytTr DNA-binding domain; Region: LytTR; cl04498 296591010959 Histidine kinase; Region: His_kinase; pfam06580 296591010960 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 296591010961 argininosuccinate lyase; Provisional; Region: PRK00855 296591010962 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 296591010963 active sites [active] 296591010964 tetramer interface [polypeptide binding]; other site 296591010965 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 296591010966 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 296591010967 active site 296591010968 phosphorylation site [posttranslational modification] 296591010969 intermolecular recognition site; other site 296591010970 dimerization interface [polypeptide binding]; other site 296591010971 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 296591010972 DNA binding site [nucleotide binding] 296591010973 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 296591010974 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 296591010975 dimer interface [polypeptide binding]; other site 296591010976 phosphorylation site [posttranslational modification] 296591010977 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 296591010978 ATP binding site [chemical binding]; other site 296591010979 Mg2+ binding site [ion binding]; other site 296591010980 G-X-G motif; other site 296591010981 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 296591010982 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 296591010983 protein binding site [polypeptide binding]; other site 296591010984 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 296591010985 protein binding site [polypeptide binding]; other site 296591010986 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 296591010987 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 296591010988 substrate binding site [chemical binding]; other site 296591010989 oxyanion hole (OAH) forming residues; other site 296591010990 trimer interface [polypeptide binding]; other site 296591010991 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 296591010992 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 296591010993 active site 296591010994 substrate binding site [chemical binding]; other site 296591010995 FMN binding site [chemical binding]; other site 296591010996 putative catalytic residues [active] 296591010997 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 296591010998 trimer interface [polypeptide binding]; other site 296591010999 eyelet of channel; other site 296591011000 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 296591011001 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 296591011002 FMN-binding pocket [chemical binding]; other site 296591011003 flavin binding motif; other site 296591011004 phosphate binding motif [ion binding]; other site 296591011005 beta-alpha-beta structure motif; other site 296591011006 NAD binding pocket [chemical binding]; other site 296591011007 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 296591011008 catalytic loop [active] 296591011009 iron binding site [ion binding]; other site 296591011010 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 296591011011 [2Fe-2S] cluster binding site [ion binding]; other site 296591011012 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 296591011013 hydrophobic ligand binding site; other site 296591011014 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591011015 NMT1-like family; Region: NMT1_2; cl15260 296591011016 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 296591011017 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 296591011018 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591011019 putative active site [active] 296591011020 putative metal binding site [ion binding]; other site 296591011021 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591011022 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 296591011023 NAD(P) binding site [chemical binding]; other site 296591011024 catalytic residues [active] 296591011025 L-aspartate dehydrogenase; Provisional; Region: PRK13303 296591011026 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591011027 Domain of unknown function DUF108; Region: DUF108; pfam01958 296591011028 hypothetical protein; Provisional; Region: PRK07064 296591011029 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 296591011030 PYR/PP interface [polypeptide binding]; other site 296591011031 dimer interface [polypeptide binding]; other site 296591011032 TPP binding site [chemical binding]; other site 296591011033 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 296591011034 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 296591011035 TPP-binding site [chemical binding]; other site 296591011036 short chain dehydrogenase; Provisional; Region: PRK07062 296591011037 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 296591011038 putative NAD(P) binding site [chemical binding]; other site 296591011039 putative active site [active] 296591011040 Transcriptional regulator [Transcription]; Region: IclR; COG1414 296591011041 Helix-turn-helix domains; Region: HTH; cl00088 296591011042 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591011043 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591011044 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591011045 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591011046 Cupin domain; Region: Cupin_2; cl09118 296591011047 short chain dehydrogenase; Provisional; Region: PRK12939 296591011048 classical (c) SDRs; Region: SDR_c; cd05233 296591011049 NAD(P) binding site [chemical binding]; other site 296591011050 active site 296591011051 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 296591011052 Cytochrome c; Region: Cytochrom_C; cl11414 296591011053 Cytochrome c; Region: Cytochrom_C; cl11414 296591011054 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 296591011055 active site 296591011056 DNA polymerase IV; Validated; Region: PRK02406 296591011057 DNA binding site [nucleotide binding] 296591011058 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 296591011059 RNA polymerase sigma factor; Provisional; Region: PRK12534 296591011060 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 296591011061 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 296591011062 DNA binding residues [nucleotide binding] 296591011063 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 296591011064 Anti-sigma-K factor rskA; Region: RskA; pfam10099 296591011065 DinB superfamily; Region: DinB_2; pfam12867 296591011066 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 296591011067 binding surface 296591011068 Tetratricopeptide repeat; Region: TPR_16; pfam13432 296591011069 TPR motif; other site 296591011070 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 296591011071 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 296591011072 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 296591011073 Cupin domain; Region: Cupin_2; cl09118 296591011074 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 296591011075 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 296591011076 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 296591011077 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 296591011078 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591011079 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591011080 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 296591011081 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 296591011082 Protein of unknown function (DUF328); Region: DUF328; cl01143 296591011083 Protein of unknown function (DUF3501); Region: DUF3501; pfam12007 296591011084 tricarballylate utilization protein B; Provisional; Region: PRK15033 296591011085 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 296591011086 Cysteine-rich domain; Region: CCG; pfam02754 296591011087 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 296591011088 binuclear metal center [ion binding]; other site 296591011089 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 296591011090 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591011091 Zn binding site [ion binding]; other site 296591011092 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 296591011093 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591011094 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 296591011095 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 296591011096 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 296591011097 protein binding site [polypeptide binding]; other site 296591011098 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 296591011099 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 296591011100 active site 296591011101 HIGH motif; other site 296591011102 nucleotide binding site [chemical binding]; other site 296591011103 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 296591011104 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 296591011105 active site 296591011106 KMSKS motif; other site 296591011107 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 296591011108 tRNA binding surface [nucleotide binding]; other site 296591011109 anticodon binding site; other site 296591011110 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 296591011111 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 296591011112 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591011113 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 296591011114 active site 296591011115 tetramer interface; other site 296591011116 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 296591011117 CPxP motif; other site 296591011118 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 296591011119 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 296591011120 nudix motif; other site 296591011121 cysteine synthase B; Region: cysM; TIGR01138 296591011122 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 296591011123 dimer interface [polypeptide binding]; other site 296591011124 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591011125 catalytic residue [active] 296591011126 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591011127 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 296591011128 Baseplate J-like protein; Region: Baseplate_J; cl01294 296591011129 Phage protein GP46; Region: GP46; cl01814 296591011130 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 296591011131 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 296591011132 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 296591011133 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 296591011134 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 296591011135 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 296591011136 Phage tail tube protein; Region: Tail_tube; pfam10618 296591011137 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 296591011138 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 296591011139 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 296591011140 Phage protein (N4 Gp49/phage Sf6 gene 66) family; Region: Phage_gp49_66; cl10351 296591011141 Domain of unknown function (DUF1834); Region: DUF1834; cl02087 296591011142 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 296591011143 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 296591011144 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 296591011145 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 296591011146 Integrase core domain; Region: rve; cl01316 296591011147 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 296591011148 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591011149 AAA domain; Region: AAA_22; pfam13401 296591011150 Predicted transcriptional regulator [General function prediction only]; Region: COG2522 296591011151 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 296591011152 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 296591011153 Mor transcription activator family; Region: Mor; cl02360 296591011154 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 296591011155 amidase catalytic site [active] 296591011156 Zn binding residues [ion binding]; other site 296591011157 substrate binding site [chemical binding]; other site 296591011158 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 296591011159 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 296591011160 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 296591011161 Protein of unknown function (DUF935); Region: DUF935; pfam06074 296591011162 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 296591011163 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 296591011164 Flavin Reductases; Region: FlaRed; cl00801 296591011165 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591011166 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591011167 NAD(P) binding site [chemical binding]; other site 296591011168 active site 296591011169 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 296591011170 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 296591011171 putative NAD(P) binding site [chemical binding]; other site 296591011172 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 296591011173 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 296591011174 catalytic loop [active] 296591011175 iron binding site [ion binding]; other site 296591011176 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 296591011177 FAD binding pocket [chemical binding]; other site 296591011178 FAD binding motif [chemical binding]; other site 296591011179 phosphate binding motif [ion binding]; other site 296591011180 beta-alpha-beta structure motif; other site 296591011181 NAD binding pocket [chemical binding]; other site 296591011182 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591011183 NMT1-like family; Region: NMT1_2; cl15260 296591011184 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591011185 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 296591011186 Walker A/P-loop; other site 296591011187 ATP binding site [chemical binding]; other site 296591011188 Q-loop/lid; other site 296591011189 ABC transporter signature motif; other site 296591011190 Walker B; other site 296591011191 D-loop; other site 296591011192 H-loop/switch region; other site 296591011193 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591011194 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 296591011195 Walker A/P-loop; other site 296591011196 ATP binding site [chemical binding]; other site 296591011197 Q-loop/lid; other site 296591011198 ABC transporter signature motif; other site 296591011199 Walker B; other site 296591011200 D-loop; other site 296591011201 H-loop/switch region; other site 296591011202 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 296591011203 TM-ABC transporter signature motif; other site 296591011204 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 296591011205 TM-ABC transporter signature motif; other site 296591011206 recombination factor protein RarA; Reviewed; Region: PRK13342 296591011207 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 296591011208 Walker A motif; other site 296591011209 ATP binding site [chemical binding]; other site 296591011210 Walker B motif; other site 296591011211 arginine finger; other site 296591011212 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 296591011213 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 296591011214 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 296591011215 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 296591011216 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 296591011217 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591011218 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 296591011219 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591011220 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 296591011221 ligand binding site [chemical binding]; other site 296591011222 flexible hinge region; other site 296591011223 Helix-turn-helix domains; Region: HTH; cl00088 296591011224 thioredoxin reductase; Provisional; Region: PRK10262 296591011225 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591011226 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 296591011227 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 296591011228 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 296591011229 Di-iron ligands [ion binding]; other site 296591011230 16S rRNA methyltransferase B; Provisional; Region: PRK14901 296591011231 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; cl15754 296591011232 Peptidase family M48; Region: Peptidase_M48; cl12018 296591011233 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 296591011234 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 296591011235 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 296591011236 G1 box; other site 296591011237 putative GEF interaction site [polypeptide binding]; other site 296591011238 GTP/Mg2+ binding site [chemical binding]; other site 296591011239 Switch I region; other site 296591011240 G2 box; other site 296591011241 G3 box; other site 296591011242 Switch II region; other site 296591011243 G4 box; other site 296591011244 G5 box; other site 296591011245 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 296591011246 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591011247 NMT1-like family; Region: NMT1_2; cl15260 296591011248 Dehydratase family; Region: ILVD_EDD; cl00340 296591011249 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 296591011250 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591011251 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591011252 Helix-turn-helix domains; Region: HTH; cl00088 296591011253 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 296591011254 putative dimerization interface [polypeptide binding]; other site 296591011255 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 296591011256 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591011257 putative metal binding site [ion binding]; other site 296591011258 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 296591011259 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 296591011260 inhibitor site; inhibition site 296591011261 active site 296591011262 dimer interface [polypeptide binding]; other site 296591011263 catalytic residue [active] 296591011264 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 296591011265 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 296591011266 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 296591011267 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 296591011268 dimer interface [polypeptide binding]; other site 296591011269 conserved gate region; other site 296591011270 putative PBP binding loops; other site 296591011271 ABC-ATPase subunit interface; other site 296591011272 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 296591011273 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 296591011274 dimer interface [polypeptide binding]; other site 296591011275 conserved gate region; other site 296591011276 putative PBP binding loops; other site 296591011277 ABC-ATPase subunit interface; other site 296591011278 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 296591011279 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 296591011280 Walker A/P-loop; other site 296591011281 ATP binding site [chemical binding]; other site 296591011282 Q-loop/lid; other site 296591011283 ABC transporter signature motif; other site 296591011284 Walker B; other site 296591011285 D-loop; other site 296591011286 H-loop/switch region; other site 296591011287 TOBE domain; Region: TOBE_2; cl01440 296591011288 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 296591011289 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591011290 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 296591011291 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 296591011292 active site 296591011293 Protein of unknown function (DUF3616); Region: DUF3616; pfam12275 296591011294 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 296591011295 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591011296 Helix-turn-helix domains; Region: HTH; cl00088 296591011297 amidase; Provisional; Region: PRK07486 296591011298 Amidase; Region: Amidase; cl11426 296591011299 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591011300 NMT1-like family; Region: NMT1_2; cl15260 296591011301 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 296591011302 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 296591011303 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591011304 catalytic residue [active] 296591011305 Helix-turn-helix domains; Region: HTH; cl00088 296591011306 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 296591011307 Helix-turn-helix domains; Region: HTH; cl00088 296591011308 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 296591011309 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 296591011310 dimer interface [polypeptide binding]; other site 296591011311 TPP-binding site [chemical binding]; other site 296591011312 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 296591011313 lipid-transfer protein; Provisional; Region: PRK08256 296591011314 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 296591011315 active site 296591011316 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 296591011317 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 296591011318 FMN binding site [chemical binding]; other site 296591011319 substrate binding site [chemical binding]; other site 296591011320 putative catalytic residue [active] 296591011321 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 296591011322 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 296591011323 substrate binding site [chemical binding]; other site 296591011324 oxyanion hole (OAH) forming residues; other site 296591011325 trimer interface [polypeptide binding]; other site 296591011326 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591011327 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591011328 active site 296591011329 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591011330 Helix-turn-helix domains; Region: HTH; cl00088 296591011331 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 296591011332 AMP-binding enzyme; Region: AMP-binding; cl15778 296591011333 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591011334 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 296591011335 Walker A/P-loop; other site 296591011336 ATP binding site [chemical binding]; other site 296591011337 Q-loop/lid; other site 296591011338 ABC transporter signature motif; other site 296591011339 Walker B; other site 296591011340 D-loop; other site 296591011341 H-loop/switch region; other site 296591011342 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591011343 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 296591011344 putative ligand binding site [chemical binding]; other site 296591011345 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 296591011346 TM-ABC transporter signature motif; other site 296591011347 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 296591011348 TM-ABC transporter signature motif; other site 296591011349 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591011350 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 296591011351 Walker A/P-loop; other site 296591011352 ATP binding site [chemical binding]; other site 296591011353 Q-loop/lid; other site 296591011354 ABC transporter signature motif; other site 296591011355 Walker B; other site 296591011356 D-loop; other site 296591011357 H-loop/switch region; other site 296591011358 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 296591011359 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 296591011360 active site 296591011361 substrate binding site [chemical binding]; other site 296591011362 cosubstrate binding site; other site 296591011363 catalytic site [active] 296591011364 hypothetical protein; Provisional; Region: PRK11239 296591011365 Protein of unknown function, DUF480; Region: DUF480; cl01209 296591011366 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 296591011367 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591011368 active site 296591011369 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 296591011370 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 296591011371 active site 296591011372 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 296591011373 active site 296591011374 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 296591011375 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 296591011376 active site 296591011377 Riboflavin kinase; Region: Flavokinase; cl03312 296591011378 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 296591011379 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 296591011380 active site 296591011381 HIGH motif; other site 296591011382 nucleotide binding site [chemical binding]; other site 296591011383 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 296591011384 active site 296591011385 KMSKS motif; other site 296591011386 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 296591011387 tRNA binding surface [nucleotide binding]; other site 296591011388 anticodon binding site; other site 296591011389 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 296591011390 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 296591011391 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 296591011392 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 296591011393 PhoU domain; Region: PhoU; pfam01895 296591011394 PhoU domain; Region: PhoU; pfam01895 296591011395 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 296591011396 nudix motif; other site 296591011397 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 296591011398 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 296591011399 NADP binding site [chemical binding]; other site 296591011400 dimer interface [polypeptide binding]; other site 296591011401 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591011402 NMT1-like family; Region: NMT1_2; cl15260 296591011403 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 296591011404 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 296591011405 Cupin domain; Region: Cupin_2; cl09118 296591011406 Amidohydrolase; Region: Amidohydro_4; pfam13147 296591011407 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 296591011408 Transcriptional regulator [Transcription]; Region: IclR; COG1414 296591011409 Helix-turn-helix domains; Region: HTH; cl00088 296591011410 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591011411 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 296591011412 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 296591011413 putative active site [active] 296591011414 putative metal binding site [ion binding]; other site 296591011415 Winged helix-turn helix; Region: HTH_33; pfam13592 296591011416 Integral membrane protein TerC family; Region: TerC; cl10468 296591011417 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 296591011418 plasma-membrane proton-efflux P-type ATPase; Region: ATPase-IIIA_H; TIGR01647 296591011419 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 296591011420 Ligand Binding Site [chemical binding]; other site 296591011421 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 296591011422 Helix-turn-helix domains; Region: HTH; cl00088 296591011423 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 296591011424 putative dimerization interface [polypeptide binding]; other site 296591011425 RIO kinase family; RIO1, RIO3 and similar proteins, 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...; Region: RIO1_like; cd05145 296591011426 ATP binding site [chemical binding]; other site 296591011427 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591011428 NMT1-like family; Region: NMT1_2; cl15260 296591011429 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591011430 NMT1-like family; Region: NMT1_2; cl15260 296591011431 aconitate hydratase; Provisional; Region: acnA; PRK12881 296591011432 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 296591011433 substrate binding site [chemical binding]; other site 296591011434 ligand binding site [chemical binding]; other site 296591011435 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 296591011436 substrate binding site [chemical binding]; other site 296591011437 Predicted transcriptional regulators [Transcription]; Region: COG1725 296591011438 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591011439 DNA-binding site [nucleotide binding]; DNA binding site 296591011440 FCD domain; Region: FCD; cl11656 296591011441 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 296591011442 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 296591011443 substrate binding pocket [chemical binding]; other site 296591011444 hinge residues; other site 296591011445 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 296591011446 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 296591011447 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591011448 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 296591011449 putative NAD(P) binding site [chemical binding]; other site 296591011450 putative active site [active] 296591011451 EamA-like transporter family; Region: EamA; cl01037 296591011452 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 296591011453 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 296591011454 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 296591011455 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 296591011456 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 296591011457 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 296591011458 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 296591011459 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 296591011460 Walker A motif; other site 296591011461 ATP binding site [chemical binding]; other site 296591011462 Walker B motif; other site 296591011463 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; cl15754 296591011464 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 296591011465 putative active site [active] 296591011466 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 296591011467 active site 296591011468 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 296591011469 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 296591011470 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 296591011471 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591011472 Walker A/P-loop; other site 296591011473 ATP binding site [chemical binding]; other site 296591011474 Q-loop/lid; other site 296591011475 ABC transporter signature motif; other site 296591011476 Walker B; other site 296591011477 D-loop; other site 296591011478 H-loop/switch region; other site 296591011479 TOBE domain; Region: TOBE_2; cl01440 296591011480 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 296591011481 conserved gate region; other site 296591011482 putative PBP binding loops; other site 296591011483 ABC-ATPase subunit interface; other site 296591011484 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 296591011485 dimer interface [polypeptide binding]; other site 296591011486 conserved gate region; other site 296591011487 putative PBP binding loops; other site 296591011488 ABC-ATPase subunit interface; other site 296591011489 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 296591011490 MoxR-like ATPases [General function prediction only]; Region: COG0714 296591011491 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 296591011492 Walker A motif; other site 296591011493 ATP binding site [chemical binding]; other site 296591011494 Walker B motif; other site 296591011495 arginine finger; other site 296591011496 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 296591011497 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 296591011498 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 296591011499 metal ion-dependent adhesion site (MIDAS); other site 296591011500 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 296591011501 HSP70 interaction site [polypeptide binding]; other site 296591011502 GAF domain; Region: GAF_2; pfam13185 296591011503 GAF domain; Region: GAF; cl15785 296591011504 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 296591011505 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 296591011506 ATP binding site [chemical binding]; other site 296591011507 Mg2+ binding site [ion binding]; other site 296591011508 G-X-G motif; other site 296591011509 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 296591011510 active site 296591011511 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 296591011512 phosphorylation site [posttranslational modification] 296591011513 intermolecular recognition site; other site 296591011514 dimerization interface [polypeptide binding]; other site 296591011515 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 296591011516 dimer interface [polypeptide binding]; other site 296591011517 phosphorylation site [posttranslational modification] 296591011518 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 296591011519 ATP binding site [chemical binding]; other site 296591011520 Mg2+ binding site [ion binding]; other site 296591011521 G-X-G motif; other site 296591011522 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 296591011523 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 296591011524 Walker A/P-loop; other site 296591011525 ATP binding site [chemical binding]; other site 296591011526 Q-loop/lid; other site 296591011527 ABC transporter signature motif; other site 296591011528 Walker B; other site 296591011529 D-loop; other site 296591011530 H-loop/switch region; other site 296591011531 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 296591011532 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 296591011533 dimer interface [polypeptide binding]; other site 296591011534 conserved gate region; other site 296591011535 putative PBP binding loops; other site 296591011536 ABC-ATPase subunit interface; other site 296591011537 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 296591011538 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 296591011539 dimer interface [polypeptide binding]; other site 296591011540 conserved gate region; other site 296591011541 putative PBP binding loops; other site 296591011542 ABC-ATPase subunit interface; other site 296591011543 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591011544 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 296591011545 substrate binding pocket [chemical binding]; other site 296591011546 membrane-bound complex binding site; other site 296591011547 hinge residues; other site 296591011548 Helix-turn-helix domains; Region: HTH; cl00088 296591011549 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 296591011550 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 296591011551 dimerization interface [polypeptide binding]; other site 296591011552 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 296591011553 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 296591011554 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591011555 Walker A/P-loop; other site 296591011556 ATP binding site [chemical binding]; other site 296591011557 Q-loop/lid; other site 296591011558 ABC transporter signature motif; other site 296591011559 Walker B; other site 296591011560 D-loop; other site 296591011561 H-loop/switch region; other site 296591011562 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 296591011563 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 296591011564 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 296591011565 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 296591011566 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 296591011567 putative NAD(P) binding site [chemical binding]; other site 296591011568 active site 296591011569 glutathione S-transferase; Provisional; Region: PRK15113 296591011570 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 296591011571 putative C-terminal domain interface [polypeptide binding]; other site 296591011572 putative GSH binding site (G-site) [chemical binding]; other site 296591011573 putative dimer interface [polypeptide binding]; other site 296591011574 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 296591011575 putative N-terminal domain interface [polypeptide binding]; other site 296591011576 putative dimer interface [polypeptide binding]; other site 296591011577 putative substrate binding pocket (H-site) [chemical binding]; other site 296591011578 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 296591011579 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 296591011580 active site 296591011581 NTP binding site [chemical binding]; other site 296591011582 metal binding triad [ion binding]; metal-binding site 296591011583 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 296591011584 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 296591011585 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 296591011586 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 296591011587 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 296591011588 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 296591011589 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 296591011590 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 296591011591 active site 296591011592 homotetramer interface [polypeptide binding]; other site 296591011593 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 296591011594 CoenzymeA binding site [chemical binding]; other site 296591011595 subunit interaction site [polypeptide binding]; other site 296591011596 PHB binding site; other site 296591011597 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591011598 Helix-turn-helix domains; Region: HTH; cl00088 296591011599 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 296591011600 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 296591011601 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591011602 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 296591011603 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 296591011604 putative hydrophobic ligand binding site [chemical binding]; other site 296591011605 YCII-related domain; Region: YCII; cl00999 296591011606 YCII-related domain; Region: YCII; cl00999 296591011607 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 296591011608 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591011609 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591011610 short chain dehydrogenase; Provisional; Region: PRK08278 296591011611 human hydroxysteroid dehydrogenase-like protein 2 (HSDL2), classical (c) SDRs; Region: HSDL2_SDR_c; cd09762 296591011612 NAD(P) binding site [chemical binding]; other site 296591011613 homodimer interface [polypeptide binding]; other site 296591011614 active site 296591011615 enoyl-CoA hydratase; Provisional; Region: PRK06688 296591011616 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 296591011617 substrate binding site [chemical binding]; other site 296591011618 oxyanion hole (OAH) forming residues; other site 296591011619 trimer interface [polypeptide binding]; other site 296591011620 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 296591011621 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 296591011622 putative substrate translocation pore; other site 296591011623 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 296591011624 DsrE/DsrF-like family; Region: DrsE; cl00672 296591011625 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 296591011626 dimerization interface [polypeptide binding]; other site 296591011627 putative DNA binding site [nucleotide binding]; other site 296591011628 putative Zn2+ binding site [ion binding]; other site 296591011629 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 296591011630 active site residue [active] 296591011631 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 296591011632 hypothetical protein; Provisional; Region: PRK10039 296591011633 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 296591011634 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 296591011635 FAD dependent oxidoreductase; Region: DAO; pfam01266 296591011636 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591011637 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 296591011638 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 296591011639 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591011640 glycerol-3-phosphate dehydrogenase, anaerobic, A subunit; Region: glycerol3P_GlpA; TIGR03377 296591011641 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 296591011642 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 296591011643 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 296591011644 dimer interface [polypeptide binding]; other site 296591011645 conserved gate region; other site 296591011646 putative PBP binding loops; other site 296591011647 ABC-ATPase subunit interface; other site 296591011648 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 296591011649 dimer interface [polypeptide binding]; other site 296591011650 conserved gate region; other site 296591011651 putative PBP binding loops; other site 296591011652 ABC-ATPase subunit interface; other site 296591011653 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 296591011654 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591011655 Walker A/P-loop; other site 296591011656 ATP binding site [chemical binding]; other site 296591011657 Q-loop/lid; other site 296591011658 ABC transporter signature motif; other site 296591011659 Walker B; other site 296591011660 D-loop; other site 296591011661 H-loop/switch region; other site 296591011662 TOBE domain; Region: TOBE_2; cl01440 296591011663 Transcriptional regulator [Transcription]; Region: IclR; COG1414 296591011664 Helix-turn-helix domains; Region: HTH; cl00088 296591011665 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591011666 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 296591011667 Helix-turn-helix domains; Region: HTH; cl00088 296591011668 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 296591011669 dimerization interface [polypeptide binding]; other site 296591011670 substrate binding pocket [chemical binding]; other site 296591011671 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 296591011672 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 296591011673 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 296591011674 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591011675 homodimer interface [polypeptide binding]; other site 296591011676 catalytic residue [active] 296591011677 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591011678 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 296591011679 tetrameric interface [polypeptide binding]; other site 296591011680 NAD binding site [chemical binding]; other site 296591011681 catalytic residues [active] 296591011682 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 296591011683 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 296591011684 dimer interface [polypeptide binding]; other site 296591011685 active site 296591011686 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 296591011687 putative active site [active] 296591011688 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 296591011689 CoenzymeA binding site [chemical binding]; other site 296591011690 subunit interaction site [polypeptide binding]; other site 296591011691 PHB binding site; other site 296591011692 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 296591011693 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591011694 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 296591011695 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 296591011696 substrate binding site [chemical binding]; other site 296591011697 oxyanion hole (OAH) forming residues; other site 296591011698 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 296591011699 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 296591011700 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591011701 active site 296591011702 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 296591011703 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591011704 Helix-turn-helix domains; Region: HTH; cl00088 296591011705 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 296591011706 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 296591011707 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591011708 classical (c) SDRs; Region: SDR_c; cd05233 296591011709 NAD(P) binding site [chemical binding]; other site 296591011710 active site 296591011711 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591011712 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 296591011713 NAD binding site [chemical binding]; other site 296591011714 homotetramer interface [polypeptide binding]; other site 296591011715 homodimer interface [polypeptide binding]; other site 296591011716 active site 296591011717 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 296591011718 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 296591011719 active site pocket [active] 296591011720 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591011721 DNA-binding site [nucleotide binding]; DNA binding site 296591011722 FCD domain; Region: FCD; cl11656 296591011723 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591011724 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591011725 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 296591011726 DctM-like transporters; Region: DctM; pfam06808 296591011727 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 296591011728 SAF domain; Region: SAF; cl00555 296591011729 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 296591011730 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 296591011731 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 296591011732 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591011733 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591011734 NAD(P) binding site [chemical binding]; other site 296591011735 active site 296591011736 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 296591011737 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 296591011738 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 296591011739 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 296591011740 structural tetrad; other site 296591011741 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 296591011742 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 296591011743 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 296591011744 Walker A/P-loop; other site 296591011745 ATP binding site [chemical binding]; other site 296591011746 Q-loop/lid; other site 296591011747 ABC transporter signature motif; other site 296591011748 Walker B; other site 296591011749 D-loop; other site 296591011750 H-loop/switch region; other site 296591011751 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 296591011752 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 296591011753 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 296591011754 dimer interface [polypeptide binding]; other site 296591011755 conserved gate region; other site 296591011756 putative PBP binding loops; other site 296591011757 ABC-ATPase subunit interface; other site 296591011758 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591011759 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 296591011760 substrate binding pocket [chemical binding]; other site 296591011761 membrane-bound complex binding site; other site 296591011762 hinge residues; other site 296591011763 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591011764 DNA-binding site [nucleotide binding]; DNA binding site 296591011765 FCD domain; Region: FCD; cl11656 296591011766 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 296591011767 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 296591011768 putative active site pocket [active] 296591011769 putative metal binding site [ion binding]; other site 296591011770 division inhibitor protein; Provisional; Region: slmA; PRK09480 296591011771 Helix-turn-helix domains; Region: HTH; cl00088 296591011772 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 296591011773 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 296591011774 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 296591011775 ATP binding site [chemical binding]; other site 296591011776 Mg2+ binding site [ion binding]; other site 296591011777 G-X-G motif; other site 296591011778 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 296591011779 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 296591011780 active site 296591011781 phosphorylation site [posttranslational modification] 296591011782 intermolecular recognition site; other site 296591011783 dimerization interface [polypeptide binding]; other site 296591011784 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 296591011785 DNA binding site [nucleotide binding] 296591011786 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 296591011787 feedback inhibition sensing region; other site 296591011788 homohexameric interface [polypeptide binding]; other site 296591011789 carbamate kinase; Reviewed; Region: PRK12686 296591011790 nucleotide binding site [chemical binding]; other site 296591011791 N-acetyl-L-glutamate binding site [chemical binding]; other site 296591011792 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 296591011793 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591011794 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 296591011795 NAD(P) binding site [chemical binding]; other site 296591011796 homodimer interface [polypeptide binding]; other site 296591011797 substrate binding site [chemical binding]; other site 296591011798 active site 296591011799 H-NS histone family; Region: Histone_HNS; pfam00816 296591011800 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 296591011801 Bacterial sugar transferase; Region: Bac_transf; cl00939 296591011802 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 296591011803 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 296591011804 putative NAD(P) binding site [chemical binding]; other site 296591011805 active site 296591011806 putative substrate binding site [chemical binding]; other site 296591011807 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 296591011808 putative ADP-binding pocket [chemical binding]; other site 296591011809 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 296591011810 active site 296591011811 dimer interface [polypeptide binding]; other site 296591011812 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 296591011813 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 296591011814 Ligand Binding Site [chemical binding]; other site 296591011815 Molecular Tunnel; other site 296591011816 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 296591011817 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 296591011818 Probable Catalytic site; other site 296591011819 metal-binding site 296591011820 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 296591011821 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591011822 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 296591011823 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 296591011824 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 296591011825 active site 296591011826 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 296591011827 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 296591011828 active site 296591011829 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591011830 MatE; Region: MatE; cl10513 296591011831 colanic acid exporter; Provisional; Region: PRK10459 296591011832 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 296591011833 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 296591011834 NAD binding site [chemical binding]; other site 296591011835 substrate binding site [chemical binding]; other site 296591011836 homodimer interface [polypeptide binding]; other site 296591011837 active site 296591011838 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 296591011839 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591011840 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 296591011841 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591011842 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 296591011843 Mg++ binding site [ion binding]; other site 296591011844 putative catalytic motif [active] 296591011845 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 296591011846 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 296591011847 Substrate binding site; other site 296591011848 Cupin domain; Region: Cupin_2; cl09118 296591011849 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 296591011850 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 296591011851 NADP binding site [chemical binding]; other site 296591011852 active site 296591011853 putative substrate binding site [chemical binding]; other site 296591011854 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 296591011855 ABC-2 type transporter; Region: ABC2_membrane; cl11417 296591011856 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 296591011857 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 296591011858 Walker A/P-loop; other site 296591011859 ATP binding site [chemical binding]; other site 296591011860 Q-loop/lid; other site 296591011861 ABC transporter signature motif; other site 296591011862 Walker B; other site 296591011863 D-loop; other site 296591011864 H-loop/switch region; other site 296591011865 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 296591011866 putative carbohydrate binding site [chemical binding]; other site 296591011867 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591011868 Methyltransferase in polyketide synthase (PKS) enzymes; Region: PKS_MT; smart00828 296591011869 GtrA-like protein; Region: GtrA; cl00971 296591011870 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591011871 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 296591011872 NAD(P) binding site [chemical binding]; other site 296591011873 active site 296591011874 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 296591011875 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 296591011876 Ligand binding site; other site 296591011877 Putative Catalytic site; other site 296591011878 DXD motif; other site 296591011879 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 296591011880 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 296591011881 substrate binding site; other site 296591011882 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 296591011883 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 296591011884 NAD binding site [chemical binding]; other site 296591011885 homotetramer interface [polypeptide binding]; other site 296591011886 homodimer interface [polypeptide binding]; other site 296591011887 substrate binding site [chemical binding]; other site 296591011888 active site 296591011889 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 296591011890 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 296591011891 inhibitor-cofactor binding pocket; inhibition site 296591011892 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591011893 catalytic residue [active] 296591011894 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 296591011895 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 296591011896 NADP-binding site; other site 296591011897 homotetramer interface [polypeptide binding]; other site 296591011898 substrate binding site [chemical binding]; other site 296591011899 homodimer interface [polypeptide binding]; other site 296591011900 active site 296591011901 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591011902 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 296591011903 NAD(P) binding site [chemical binding]; other site 296591011904 active site 296591011905 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 296591011906 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 296591011907 active site 296591011908 phosphate binding residues; other site 296591011909 catalytic residues [active] 296591011910 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 296591011911 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 296591011912 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 296591011913 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 296591011914 putative ADP-binding pocket [chemical binding]; other site 296591011915 Cupin domain; Region: Cupin_2; cl09118 296591011916 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 296591011917 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 296591011918 substrate binding site; other site 296591011919 tetramer interface; other site 296591011920 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 296591011921 oligomeric interface; other site 296591011922 putative active site [active] 296591011923 homodimer interface [polypeptide binding]; other site 296591011924 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 296591011925 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 296591011926 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 296591011927 NADP binding site [chemical binding]; other site 296591011928 active site 296591011929 putative substrate binding site [chemical binding]; other site 296591011930 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 296591011931 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 296591011932 NAD binding site [chemical binding]; other site 296591011933 substrate binding site [chemical binding]; other site 296591011934 homodimer interface [polypeptide binding]; other site 296591011935 active site 296591011936 short chain dehydrogenase; Provisional; Region: PRK07201 296591011937 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 296591011938 putative NAD(P) binding site [chemical binding]; other site 296591011939 active site 296591011940 putative substrate binding site [chemical binding]; other site 296591011941 classical (c) SDRs; Region: SDR_c; cd05233 296591011942 NAD(P) binding site [chemical binding]; other site 296591011943 active site 296591011944 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 296591011945 Helix-turn-helix domains; Region: HTH; cl00088 296591011946 Bacterial transcriptional repressor; Region: TetR; pfam13972 296591011947 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 296591011948 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 296591011949 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 296591011950 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 296591011951 UbiA prenyltransferase family; Region: UbiA; cl00337 296591011952 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591011953 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 296591011954 putative ligand binding site [chemical binding]; other site 296591011955 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 296591011956 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 296591011957 putative [4Fe-4S] binding site [ion binding]; other site 296591011958 putative molybdopterin cofactor binding site [chemical binding]; other site 296591011959 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 296591011960 putative molybdopterin cofactor binding site; other site 296591011961 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 296591011962 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 296591011963 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591011964 Helix-turn-helix domains; Region: HTH; cl00088 296591011965 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 296591011966 putative dimerization interface [polypeptide binding]; other site 296591011967 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591011968 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591011969 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 296591011970 active site 296591011971 catalytic residues [active] 296591011972 metal binding site [ion binding]; metal-binding site 296591011973 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 296591011974 dimer interface [polypeptide binding]; other site 296591011975 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591011976 metal binding site [ion binding]; metal-binding site 296591011977 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591011978 NMT1-like family; Region: NMT1_2; cl15260 296591011979 Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a...; Region: ACBP; cl00221 296591011980 acyl-CoA binding pocket [chemical binding]; other site 296591011981 CoA binding site [chemical binding]; other site 296591011982 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 296591011983 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 296591011984 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 296591011985 HEAT repeats; Region: HEAT_2; pfam13646 296591011986 Type III pantothenate kinase; Region: Pan_kinase; cl09130 296591011987 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 296591011988 DNA binding residues [nucleotide binding] 296591011989 dimerization interface [polypeptide binding]; other site 296591011990 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 296591011991 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 296591011992 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 296591011993 ATP binding site [chemical binding]; other site 296591011994 Mg2+ binding site [ion binding]; other site 296591011995 G-X-G motif; other site 296591011996 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; cl09944 296591011997 active site 296591011998 phosphorylation site [posttranslational modification] 296591011999 intermolecular recognition site; other site 296591012000 dimerization interface [polypeptide binding]; other site 296591012001 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 296591012002 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 296591012003 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591012004 catalytic residue [active] 296591012005 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 296591012006 active site residue [active] 296591012007 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 296591012008 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 296591012009 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591012010 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 296591012011 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 296591012012 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 296591012013 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 296591012014 B12 binding site [chemical binding]; other site 296591012015 cobalt ligand [ion binding]; other site 296591012016 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 296591012017 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 296591012018 Walker A; other site 296591012019 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 296591012020 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 296591012021 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 296591012022 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 296591012023 active site 296591012024 catalytic tetrad [active] 296591012025 Cupin domain; Region: Cupin_2; cl09118 296591012026 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 296591012027 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 296591012028 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 296591012029 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 296591012030 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 296591012031 Cytochrome c; Region: Cytochrom_C; cl11414 296591012032 Cytochrome c; Region: Cytochrom_C; cl11414 296591012033 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 296591012034 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 296591012035 catalytic loop [active] 296591012036 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 296591012037 iron binding site [ion binding]; other site 296591012038 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 296591012039 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 296591012040 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591012041 putative ligand binding site [chemical binding]; other site 296591012042 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591012043 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 296591012044 Walker A/P-loop; other site 296591012045 ATP binding site [chemical binding]; other site 296591012046 Q-loop/lid; other site 296591012047 ABC transporter signature motif; other site 296591012048 Walker B; other site 296591012049 D-loop; other site 296591012050 H-loop/switch region; other site 296591012051 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591012052 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 296591012053 Walker A/P-loop; other site 296591012054 ATP binding site [chemical binding]; other site 296591012055 Q-loop/lid; other site 296591012056 ABC transporter signature motif; other site 296591012057 Walker B; other site 296591012058 D-loop; other site 296591012059 H-loop/switch region; other site 296591012060 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 296591012061 TM-ABC transporter signature motif; other site 296591012062 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 296591012063 TM-ABC transporter signature motif; other site 296591012064 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 296591012065 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591012066 putative ligand binding site [chemical binding]; other site 296591012067 Amino acid synthesis; Region: AA_synth; pfam06684 296591012068 Amino acid synthesis; Region: AA_synth; pfam06684 296591012069 ApbE family; Region: ApbE; cl00643 296591012070 Ferredoxin [Energy production and conversion]; Region: COG1146 296591012071 4Fe-4S binding domain; Region: Fer4; cl02805 296591012072 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 296591012073 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 296591012074 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 296591012075 FAD binding pocket [chemical binding]; other site 296591012076 FAD binding motif [chemical binding]; other site 296591012077 phosphate binding motif [ion binding]; other site 296591012078 beta-alpha-beta structure motif; other site 296591012079 NAD binding pocket [chemical binding]; other site 296591012080 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 296591012081 Helix-turn-helix domains; Region: HTH; cl00088 296591012082 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 296591012083 Amidohydrolase; Region: Amidohydro_4; pfam13147 296591012084 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 296591012085 active site 296591012086 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 296591012087 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591012088 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 296591012089 Walker A/P-loop; other site 296591012090 ATP binding site [chemical binding]; other site 296591012091 Q-loop/lid; other site 296591012092 ABC transporter signature motif; other site 296591012093 Walker B; other site 296591012094 D-loop; other site 296591012095 H-loop/switch region; other site 296591012096 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591012097 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 296591012098 Walker A/P-loop; other site 296591012099 ATP binding site [chemical binding]; other site 296591012100 Q-loop/lid; other site 296591012101 ABC transporter signature motif; other site 296591012102 Walker B; other site 296591012103 D-loop; other site 296591012104 H-loop/switch region; other site 296591012105 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591012106 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 296591012107 putative ligand binding site [chemical binding]; other site 296591012108 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 296591012109 TM-ABC transporter signature motif; other site 296591012110 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 296591012111 TM-ABC transporter signature motif; other site 296591012112 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 296591012113 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 296591012114 conserved cys residue [active] 296591012115 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 296591012116 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 296591012117 catalytic triad [active] 296591012118 conserved cis-peptide bond; other site 296591012119 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 296591012120 intersubunit interface [polypeptide binding]; other site 296591012121 active site 296591012122 Zn2+ binding site [ion binding]; other site 296591012123 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 296591012124 Helix-turn-helix domains; Region: HTH; cl00088 296591012125 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 296591012126 dimerization interface [polypeptide binding]; other site 296591012127 substrate binding pocket [chemical binding]; other site 296591012128 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 296591012129 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 296591012130 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 296591012131 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 296591012132 Uncharacterized conserved protein [Function unknown]; Region: COG1565 296591012133 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 296591012134 pteridine reductase; Provisional; Region: PRK09135 296591012135 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591012136 NAD(P) binding site [chemical binding]; other site 296591012137 active site 296591012138 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 296591012139 active site 296591012140 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 296591012141 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 296591012142 Ligand Binding Site [chemical binding]; other site 296591012143 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 296591012144 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 296591012145 catalytic core [active] 296591012146 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 296591012147 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 296591012148 dimer interface [polypeptide binding]; other site 296591012149 active site 296591012150 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 296591012151 substrate binding site [chemical binding]; other site 296591012152 catalytic residue [active] 296591012153 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 296591012154 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 296591012155 Walker A motif; other site 296591012156 ATP binding site [chemical binding]; other site 296591012157 Walker B motif; other site 296591012158 arginine finger; other site 296591012159 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 296591012160 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 296591012161 RuvA N terminal domain; Region: RuvA_N; pfam01330 296591012162 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 296591012163 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 296591012164 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591012165 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 296591012166 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 296591012167 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 296591012168 dimerization interface [polypeptide binding]; other site 296591012169 putative tRNAtyr binding site [nucleotide binding]; other site 296591012170 putative active site [active] 296591012171 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 296591012172 Cation efflux family; Region: Cation_efflux; cl00316 296591012173 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 296591012174 dimer interface [polypeptide binding]; other site 296591012175 phosphorylation site [posttranslational modification] 296591012176 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 296591012177 ATP binding site [chemical binding]; other site 296591012178 Mg2+ binding site [ion binding]; other site 296591012179 G-X-G motif; other site 296591012180 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 296591012181 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 296591012182 active site 296591012183 phosphorylation site [posttranslational modification] 296591012184 intermolecular recognition site; other site 296591012185 dimerization interface [polypeptide binding]; other site 296591012186 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 296591012187 DNA binding residues [nucleotide binding] 296591012188 dimerization interface [polypeptide binding]; other site 296591012189 Domain of unknown function (DUF336); Region: DUF336; cl01249 296591012190 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 296591012191 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 296591012192 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 296591012193 PIN domain of the Rv0301 toxin of Mycobacterium tuberculosis and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MtRv0301; cd09882 296591012194 putative active site [active] 296591012195 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; cl02270 296591012196 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 296591012197 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 296591012198 active site 296591012199 HIGH motif; other site 296591012200 dimer interface [polypeptide binding]; other site 296591012201 KMSKS motif; other site 296591012202 Peptidase family M23; Region: Peptidase_M23; pfam01551 296591012203 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 296591012204 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 296591012205 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 296591012206 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 296591012207 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 296591012208 23S rRNA interface [nucleotide binding]; other site 296591012209 L3 interface [polypeptide binding]; other site 296591012210 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 296591012211 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 296591012212 S-adenosylmethionine binding site [chemical binding]; other site 296591012213 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 296591012214 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 296591012215 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 296591012216 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 296591012217 Predicted transcriptional regulators [Transcription]; Region: COG1510 296591012218 Helix-turn-helix domains; Region: HTH; cl00088 296591012219 BON domain; Region: BON; cl02771 296591012220 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 296591012221 putative hydrophobic ligand binding site [chemical binding]; other site 296591012222 DoxX; Region: DoxX; cl00976 296591012223 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591012224 NMT1-like family; Region: NMT1_2; cl15260 296591012225 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 296591012226 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591012227 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591012228 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 296591012229 active site 296591012230 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 296591012231 AMP-binding enzyme; Region: AMP-binding; cl15778 296591012232 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591012233 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 296591012234 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591012235 Zn binding site [ion binding]; other site 296591012236 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591012237 Helix-turn-helix domains; Region: HTH; cl00088 296591012238 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 296591012239 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 296591012240 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 296591012241 FAD binding site [chemical binding]; other site 296591012242 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 296591012243 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 296591012244 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; cl15754 296591012245 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 296591012246 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 296591012247 oligomerization interface [polypeptide binding]; other site 296591012248 active site 296591012249 NAD+ binding site [chemical binding]; other site 296591012250 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 296591012251 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591012252 Helix-turn-helix domains; Region: HTH; cl00088 296591012253 Transposase; Region: DEDD_Tnp_IS110; pfam01548 296591012254 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 296591012255 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591012256 NMT1-like family; Region: NMT1_2; cl15260 296591012257 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 296591012258 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 296591012259 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 296591012260 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 296591012261 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 296591012262 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 296591012263 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 296591012264 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 296591012265 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 296591012266 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591012267 putative ligand binding site [chemical binding]; other site 296591012268 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 296591012269 putative substrate translocation pore; other site 296591012270 metabolite-proton symporter; Region: 2A0106; TIGR00883 296591012271 Sodium:solute symporter family; Region: SSF; cl00456 296591012272 Sodium:solute symporter family; Region: SSF; cl00456 296591012273 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 296591012274 TPR repeat; Region: TPR_11; pfam13414 296591012275 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 296591012276 binding surface 296591012277 TPR motif; other site 296591012278 Sodium:solute symporter family; Region: SSF; cl00456 296591012279 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 296591012280 rod shape-determining protein MreC; Region: mreC; TIGR00219 296591012281 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 296591012282 dimer interface [polypeptide binding]; other site 296591012283 phosphorylation site [posttranslational modification] 296591012284 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 296591012285 ATP binding site [chemical binding]; other site 296591012286 Mg2+ binding site [ion binding]; other site 296591012287 G-X-G motif; other site 296591012288 Response regulator receiver domain; Region: Response_reg; pfam00072 296591012289 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 296591012290 active site 296591012291 phosphorylation site [posttranslational modification] 296591012292 intermolecular recognition site; other site 296591012293 dimerization interface [polypeptide binding]; other site 296591012294 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 296591012295 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 296591012296 active site 296591012297 substrate binding site [chemical binding]; other site 296591012298 catalytic site [active] 296591012299 FOG: CBS domain [General function prediction only]; Region: COG0517 296591012300 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 296591012301 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 296591012302 metal binding triad; other site 296591012303 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 296591012304 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 296591012305 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 296591012306 putative catalytic residue [active] 296591012307 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 296591012308 putative deacylase active site [active] 296591012309 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 296591012310 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 296591012311 active site 296591012312 catalytic residues [active] 296591012313 metal binding site [ion binding]; metal-binding site 296591012314 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 296591012315 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591012316 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 296591012317 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 296591012318 ATP-grasp domain; Region: ATP-grasp_4; cl03087 296591012319 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 296591012320 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 296591012321 carboxyltransferase (CT) interaction site; other site 296591012322 biotinylation site [posttranslational modification]; other site 296591012323 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 296591012324 enoyl-CoA hydratase; Provisional; Region: PRK05995 296591012325 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 296591012326 substrate binding site [chemical binding]; other site 296591012327 oxyanion hole (OAH) forming residues; other site 296591012328 trimer interface [polypeptide binding]; other site 296591012329 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 296591012330 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 296591012331 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 296591012332 AMP-binding domain protein; Validated; Region: PRK08315 296591012333 AMP-binding enzyme; Region: AMP-binding; cl15778 296591012334 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591012335 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 296591012336 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 296591012337 Helix-turn-helix domain; Region: HTH_18; pfam12833 296591012338 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 296591012339 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 296591012340 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 296591012341 putative C-terminal domain interface [polypeptide binding]; other site 296591012342 putative GSH binding site (G-site) [chemical binding]; other site 296591012343 putative dimer interface [polypeptide binding]; other site 296591012344 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 296591012345 N-terminal domain interface [polypeptide binding]; other site 296591012346 dimer interface [polypeptide binding]; other site 296591012347 substrate binding pocket (H-site) [chemical binding]; other site 296591012348 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 296591012349 Transmembrane secretion effector; Region: MFS_3; pfam05977 296591012350 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 296591012351 putative substrate translocation pore; other site 296591012352 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 296591012353 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591012354 NMT1-like family; Region: NMT1_2; cl15260 296591012355 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 296591012356 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 296591012357 active site 296591012358 substrate binding site [chemical binding]; other site 296591012359 cosubstrate binding site; other site 296591012360 catalytic site [active] 296591012361 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 296591012362 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 296591012363 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 296591012364 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 296591012365 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 296591012366 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591012367 catalytic residue [active] 296591012368 YCII-related domain; Region: YCII; cl00999 296591012369 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 296591012370 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 296591012371 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 296591012372 N-terminal domain interface [polypeptide binding]; other site 296591012373 DoxX; Region: DoxX; cl00976 296591012374 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591012375 Helix-turn-helix domains; Region: HTH; cl00088 296591012376 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 296591012377 dimerization interface [polypeptide binding]; other site 296591012378 Cupin domain; Region: Cupin_2; cl09118 296591012379 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 296591012380 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 296591012381 putative catalytic residues [active] 296591012382 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 296591012383 hypothetical protein; Provisional; Region: PRK01842 296591012384 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 296591012385 active site 296591012386 catalytic residue [active] 296591012387 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591012388 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591012389 active site 296591012390 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 296591012391 NADP binding site [chemical binding]; other site 296591012392 homodimer interface [polypeptide binding]; other site 296591012393 active site 296591012394 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 296591012395 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 296591012396 dimer interface [polypeptide binding]; other site 296591012397 active site 296591012398 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 296591012399 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 296591012400 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 296591012401 active site clefts [active] 296591012402 zinc binding site [ion binding]; other site 296591012403 dimer interface [polypeptide binding]; other site 296591012404 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 296591012405 isovaleryl-CoA dehydrogenase; Region: PLN02519 296591012406 substrate binding site [chemical binding]; other site 296591012407 FAD binding site [chemical binding]; other site 296591012408 catalytic base [active] 296591012409 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 296591012410 CoenzymeA binding site [chemical binding]; other site 296591012411 subunit interaction site [polypeptide binding]; other site 296591012412 PHB binding site; other site 296591012413 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 296591012414 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 296591012415 DNA binding residues [nucleotide binding] 296591012416 putative dimer interface [polypeptide binding]; other site 296591012417 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 296591012418 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 296591012419 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 296591012420 PAS fold; Region: PAS_4; pfam08448 296591012421 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 296591012422 putative active site [active] 296591012423 heme pocket [chemical binding]; other site 296591012424 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 296591012425 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 296591012426 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 296591012427 dimer interface [polypeptide binding]; other site 296591012428 phosphorylation site [posttranslational modification] 296591012429 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 296591012430 ATP binding site [chemical binding]; other site 296591012431 Mg2+ binding site [ion binding]; other site 296591012432 G-X-G motif; other site 296591012433 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 296591012434 DNA binding residues [nucleotide binding] 296591012435 Response regulator receiver domain; Region: Response_reg; pfam00072 296591012436 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 296591012437 active site 296591012438 phosphorylation site [posttranslational modification] 296591012439 intermolecular recognition site; other site 296591012440 dimerization interface [polypeptide binding]; other site 296591012441 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 296591012442 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 296591012443 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 296591012444 PAS fold; Region: PAS_3; pfam08447 296591012445 putative active site [active] 296591012446 heme pocket [chemical binding]; other site 296591012447 PAS domain; Region: PAS_9; pfam13426 296591012448 PAS domain; Region: PAS_9; pfam13426 296591012449 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 296591012450 putative active site [active] 296591012451 heme pocket [chemical binding]; other site 296591012452 PAS domain S-box; Region: sensory_box; TIGR00229 296591012453 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 296591012454 GAF domain; Region: GAF_2; pfam13185 296591012455 GAF domain; Region: GAF; cl15785 296591012456 PAS domain S-box; Region: sensory_box; TIGR00229 296591012457 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 296591012458 putative active site [active] 296591012459 heme pocket [chemical binding]; other site 296591012460 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 296591012461 dimer interface [polypeptide binding]; other site 296591012462 phosphorylation site [posttranslational modification] 296591012463 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 296591012464 ATP binding site [chemical binding]; other site 296591012465 Mg2+ binding site [ion binding]; other site 296591012466 G-X-G motif; other site 296591012467 Response regulator receiver domain; Region: Response_reg; pfam00072 296591012468 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 296591012469 active site 296591012470 phosphorylation site [posttranslational modification] 296591012471 intermolecular recognition site; other site 296591012472 dimerization interface [polypeptide binding]; other site 296591012473 Protein of unknown function DUF45; Region: DUF45; cl00636 296591012474 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 296591012475 putative acyl-acceptor binding pocket; other site 296591012476 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 296591012477 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 296591012478 active site 296591012479 motif I; other site 296591012480 motif II; other site 296591012481 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 296591012482 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 296591012483 dimer interface [polypeptide binding]; other site 296591012484 motif 1; other site 296591012485 active site 296591012486 motif 2; other site 296591012487 motif 3; other site 296591012488 Helix-turn-helix domains; Region: HTH; cl00088 296591012489 transcriptional activator TtdR; Provisional; Region: PRK09801 296591012490 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 296591012491 putative effector binding pocket; other site 296591012492 dimerization interface [polypeptide binding]; other site 296591012493 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591012494 classical (c) SDRs; Region: SDR_c; cd05233 296591012495 NAD(P) binding site [chemical binding]; other site 296591012496 active site 296591012497 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 296591012498 active site 296591012499 homodimer interface [polypeptide binding]; other site 296591012500 homotetramer interface [polypeptide binding]; other site 296591012501 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591012502 Helix-turn-helix domains; Region: HTH; cl00088 296591012503 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 296591012504 dimerization interface [polypeptide binding]; other site 296591012505 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 296591012506 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 296591012507 putative active site [active] 296591012508 catalytic triad [active] 296591012509 putative dimer interface [polypeptide binding]; other site 296591012510 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 296591012511 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 296591012512 Transporter associated domain; Region: CorC_HlyC; cl08393 296591012513 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 296591012514 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 296591012515 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 296591012516 putative DNA binding site [nucleotide binding]; other site 296591012517 putative Zn2+ binding site [ion binding]; other site 296591012518 Helix-turn-helix domains; Region: HTH; cl00088 296591012519 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 296591012520 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 296591012521 dimer interface [polypeptide binding]; other site 296591012522 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 296591012523 active site 296591012524 Fe binding site [ion binding]; other site 296591012525 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 296591012526 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591012527 substrate binding pocket [chemical binding]; other site 296591012528 membrane-bound complex binding site; other site 296591012529 hinge residues; other site 296591012530 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 296591012531 cofactor binding site; other site 296591012532 metal binding site [ion binding]; metal-binding site 296591012533 cyclase homology domain; Region: CHD; cd07302 296591012534 nucleotidyl binding site; other site 296591012535 metal binding site [ion binding]; metal-binding site 296591012536 dimer interface [polypeptide binding]; other site 296591012537 TolB amino-terminal domain; Region: TolB_N; cl00639 296591012538 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 296591012539 TPR motif; other site 296591012540 TPR repeat; Region: TPR_11; pfam13414 296591012541 binding surface 296591012542 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 296591012543 binding surface 296591012544 TPR motif; other site 296591012545 PAP2_like_1 proteins, a sub-family of PAP2, containing bacterial acid phosphatase, vanadium chloroperoxidases and vanadium bromoperoxidases; Region: PAP2_like_1; cd03380 296591012546 active site 296591012547 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 296591012548 active site 296591012549 catalytic residues [active] 296591012550 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591012551 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 296591012552 ligand binding site [chemical binding]; other site 296591012553 flexible hinge region; other site 296591012554 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 296591012555 non-specific DNA interactions [nucleotide binding]; other site 296591012556 DNA binding site [nucleotide binding] 296591012557 sequence specific DNA binding site [nucleotide binding]; other site 296591012558 putative cAMP binding site [chemical binding]; other site 296591012559 Helix-turn-helix domains; Region: HTH; cl00088 296591012560 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591012561 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 296591012562 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 296591012563 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 296591012564 AMP-binding enzyme; Region: AMP-binding; cl15778 296591012565 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591012566 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 296591012567 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 296591012568 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 296591012569 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 296591012570 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 296591012571 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 296591012572 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 296591012573 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 296591012574 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 296591012575 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 296591012576 ABC transporter ATPase component; Reviewed; Region: PRK11147 296591012577 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591012578 Walker A/P-loop; other site 296591012579 ATP binding site [chemical binding]; other site 296591012580 Q-loop/lid; other site 296591012581 ABC transporter signature motif; other site 296591012582 Walker B; other site 296591012583 D-loop; other site 296591012584 H-loop/switch region; other site 296591012585 ABC transporter; Region: ABC_tran_2; pfam12848 296591012586 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 296591012587 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 296591012588 PLD-like domain; Region: PLDc_2; pfam13091 296591012589 putative active site [active] 296591012590 catalytic site [active] 296591012591 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 296591012592 PLD-like domain; Region: PLDc_2; pfam13091 296591012593 putative active site [active] 296591012594 catalytic site [active] 296591012595 Cupin domain; Region: Cupin_2; cl09118 296591012596 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 296591012597 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591012598 DNA-binding site [nucleotide binding]; DNA binding site 296591012599 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 296591012600 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 296591012601 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591012602 homodimer interface [polypeptide binding]; other site 296591012603 catalytic residue [active] 296591012604 LysE type translocator; Region: LysE; cl00565 296591012605 EamA-like transporter family; Region: EamA; cl01037 296591012606 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 296591012607 EamA-like transporter family; Region: EamA; cl01037 296591012608 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 296591012609 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 296591012610 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 296591012611 conserved cys residue [active] 296591012612 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 296591012613 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 296591012614 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591012615 homodimer interface [polypeptide binding]; other site 296591012616 catalytic residue [active] 296591012617 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 296591012618 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 296591012619 putative C-terminal domain interface [polypeptide binding]; other site 296591012620 putative GSH binding site (G-site) [chemical binding]; other site 296591012621 putative dimer interface [polypeptide binding]; other site 296591012622 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 296591012623 putative N-terminal domain interface [polypeptide binding]; other site 296591012624 putative dimer interface [polypeptide binding]; other site 296591012625 putative substrate binding pocket (H-site) [chemical binding]; other site 296591012626 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 296591012627 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 296591012628 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 296591012629 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 296591012630 LysE type translocator; Region: LysE; cl00565 296591012631 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 296591012632 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 296591012633 tetramer interface [polypeptide binding]; other site 296591012634 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591012635 catalytic residue [active] 296591012636 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 296591012637 catalytic core [active] 296591012638 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 296591012639 transglutaminase; Provisional; Region: tgl; PRK03187 296591012640 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 296591012641 Helix-turn-helix domains; Region: HTH; cl00088 296591012642 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 296591012643 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 296591012644 active site 296591012645 catalytic tetrad [active] 296591012646 MFS transport protein AraJ; Provisional; Region: PRK10091 296591012647 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 296591012648 putative substrate translocation pore; other site 296591012649 LysR family transcriptional regulator; Provisional; Region: PRK14997 296591012650 Helix-turn-helix domains; Region: HTH; cl00088 296591012651 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 296591012652 putative effector binding pocket; other site 296591012653 putative dimerization interface [polypeptide binding]; other site 296591012654 K+ potassium transporter; Region: K_trans; cl15781 296591012655 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 296591012656 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 296591012657 active site 296591012658 phosphorylation site [posttranslational modification] 296591012659 intermolecular recognition site; other site 296591012660 dimerization interface [polypeptide binding]; other site 296591012661 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 296591012662 DNA binding site [nucleotide binding] 296591012663 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 296591012664 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 296591012665 dimer interface [polypeptide binding]; other site 296591012666 phosphorylation site [posttranslational modification] 296591012667 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 296591012668 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 296591012669 ATP binding site [chemical binding]; other site 296591012670 Mg2+ binding site [ion binding]; other site 296591012671 G-X-G motif; other site 296591012672 Creatinine amidohydrolase; Region: Creatininase; cl00618 296591012673 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 296591012674 B12 binding site [chemical binding]; other site 296591012675 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 296591012676 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 296591012677 FeS/SAM binding site; other site 296591012678 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 296591012679 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 296591012680 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 296591012681 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 296591012682 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 296591012683 DsbD alpha interface [polypeptide binding]; other site 296591012684 catalytic residues [active] 296591012685 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591012686 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 296591012687 S-adenosylmethionine binding site [chemical binding]; other site 296591012688 GAF domain; Region: GAF; cl15785 296591012689 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 296591012690 PAS fold; Region: PAS_4; pfam08448 296591012691 PAS domain; Region: PAS_9; pfam13426 296591012692 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 296591012693 putative active site [active] 296591012694 heme pocket [chemical binding]; other site 296591012695 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 296591012696 metal binding site [ion binding]; metal-binding site 296591012697 active site 296591012698 I-site; other site 296591012699 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 296591012700 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 296591012701 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 296591012702 substrate binding site [chemical binding]; other site 296591012703 active site 296591012704 primosome assembly protein PriA; Validated; Region: PRK05580 296591012705 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 296591012706 ATP binding site [chemical binding]; other site 296591012707 putative Mg++ binding site [ion binding]; other site 296591012708 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591012709 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 296591012710 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 296591012711 Helix-turn-helix domains; Region: HTH; cl00088 296591012712 Helix-turn-helix domains; Region: HTH; cl00088 296591012713 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 296591012714 putative ABC transporter; Region: ycf24; CHL00085 296591012715 FeS assembly ATPase SufC; Region: sufC; TIGR01978 296591012716 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 296591012717 Walker A/P-loop; other site 296591012718 ATP binding site [chemical binding]; other site 296591012719 Q-loop/lid; other site 296591012720 ABC transporter signature motif; other site 296591012721 Walker B; other site 296591012722 D-loop; other site 296591012723 H-loop/switch region; other site 296591012724 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 296591012725 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 296591012726 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 296591012727 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 296591012728 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 296591012729 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591012730 catalytic residue [active] 296591012731 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 296591012732 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 296591012733 trimerization site [polypeptide binding]; other site 296591012734 active site 296591012735 Domain of unknown function DUF59; Region: DUF59; cl00941 296591012736 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 296591012737 [2Fe-2S] cluster binding site [ion binding]; other site 296591012738 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 296591012739 PAS fold; Region: PAS_3; pfam08447 296591012740 putative active site [active] 296591012741 heme pocket [chemical binding]; other site 296591012742 PAS domain; Region: PAS_9; pfam13426 296591012743 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 296591012744 PAS fold; Region: PAS_4; pfam08448 296591012745 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 296591012746 putative active site [active] 296591012747 heme pocket [chemical binding]; other site 296591012748 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 296591012749 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 296591012750 putative active site [active] 296591012751 heme pocket [chemical binding]; other site 296591012752 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 296591012753 dimer interface [polypeptide binding]; other site 296591012754 phosphorylation site [posttranslational modification] 296591012755 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 296591012756 ATP binding site [chemical binding]; other site 296591012757 Mg2+ binding site [ion binding]; other site 296591012758 G-X-G motif; other site 296591012759 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 296591012760 S-adenosylmethionine binding site [chemical binding]; other site 296591012761 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 296591012762 S-adenosylmethionine binding site [chemical binding]; other site 296591012763 Membrane transport protein; Region: Mem_trans; cl09117 296591012764 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 296591012765 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591012766 Family description; Region: UvrD_C_2; cl15862 296591012767 Family description; Region: UvrD_C_2; cl15862 296591012768 NMT1-like family; Region: NMT1_2; cl15260 296591012769 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 296591012770 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 296591012771 substrate binding site [chemical binding]; other site 296591012772 dimerization interface [polypeptide binding]; other site 296591012773 active site 296591012774 calcium binding site [ion binding]; other site 296591012775 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591012776 Helix-turn-helix domains; Region: HTH; cl00088 296591012777 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 296591012778 dimerization interface [polypeptide binding]; other site 296591012779 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 296591012780 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 296591012781 inhibitor-cofactor binding pocket; inhibition site 296591012782 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591012783 catalytic residue [active] 296591012784 elongation factor G; Reviewed; Region: PRK00007 296591012785 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 296591012786 G1 box; other site 296591012787 putative GEF interaction site [polypeptide binding]; other site 296591012788 GTP/Mg2+ binding site [chemical binding]; other site 296591012789 Switch I region; other site 296591012790 G2 box; other site 296591012791 G3 box; other site 296591012792 Switch II region; other site 296591012793 G4 box; other site 296591012794 G5 box; other site 296591012795 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 296591012796 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 296591012797 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 296591012798 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 296591012799 LysR family transcriptional regulator; Provisional; Region: PRK14997 296591012800 Helix-turn-helix domains; Region: HTH; cl00088 296591012801 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 296591012802 putative effector binding pocket; other site 296591012803 dimerization interface [polypeptide binding]; other site 296591012804 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 296591012805 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 296591012806 putative di-iron ligands [ion binding]; other site 296591012807 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 296591012808 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 296591012809 ligand binding site [chemical binding]; other site 296591012810 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 296591012811 putative switch regulator; other site 296591012812 non-specific DNA interactions [nucleotide binding]; other site 296591012813 DNA binding site [nucleotide binding] 296591012814 sequence specific DNA binding site [nucleotide binding]; other site 296591012815 putative cAMP binding site [chemical binding]; other site 296591012816 Response regulator receiver domain; Region: Response_reg; pfam00072 296591012817 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 296591012818 active site 296591012819 phosphorylation site [posttranslational modification] 296591012820 intermolecular recognition site; other site 296591012821 dimerization interface [polypeptide binding]; other site 296591012822 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 296591012823 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 296591012824 active site 296591012825 phosphorylation site [posttranslational modification] 296591012826 intermolecular recognition site; other site 296591012827 dimerization interface [polypeptide binding]; other site 296591012828 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 296591012829 DNA binding residues [nucleotide binding] 296591012830 dimerization interface [polypeptide binding]; other site 296591012831 PAS domain S-box; Region: sensory_box; TIGR00229 296591012832 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 296591012833 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 296591012834 Histidine kinase; Region: HisKA_3; pfam07730 296591012835 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 296591012836 ATP binding site [chemical binding]; other site 296591012837 Mg2+ binding site [ion binding]; other site 296591012838 G-X-G motif; other site 296591012839 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 296591012840 Ligand Binding Site [chemical binding]; other site 296591012841 FixH; Region: FixH; cl01254 296591012842 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 296591012843 4Fe-4S binding domain; Region: Fer4_5; pfam12801 296591012844 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 296591012845 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 296591012846 Cytochrome c; Region: Cytochrom_C; cl11414 296591012847 Cytochrome c; Region: Cytochrom_C; cl11414 296591012848 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 296591012849 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 296591012850 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 296591012851 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 296591012852 Low-spin heme binding site [chemical binding]; other site 296591012853 Putative water exit pathway; other site 296591012854 Binuclear center (active site) [active] 296591012855 Putative proton exit pathway; other site 296591012856 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 296591012857 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 296591012858 metal-binding site [ion binding] 296591012859 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 296591012860 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 296591012861 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 296591012862 Ligand Binding Site [chemical binding]; other site 296591012863 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 296591012864 Ligand Binding Site [chemical binding]; other site 296591012865 Predicted ATPase [General function prediction only]; Region: COG4637 296591012866 Uncharacterized conserved protein [Function unknown]; Region: COG4938 296591012867 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 296591012868 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 296591012869 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591012870 substrate binding pocket [chemical binding]; other site 296591012871 membrane-bound complex binding site; other site 296591012872 hinge residues; other site 296591012873 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591012874 NMT1-like family; Region: NMT1_2; cl15260 296591012875 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 296591012876 trimer interface [polypeptide binding]; other site 296591012877 eyelet of channel; other site 296591012878 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591012879 NMT1-like family; Region: NMT1_2; cl15260 296591012880 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 296591012881 Helix-turn-helix domains; Region: HTH; cl00088 296591012882 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 296591012883 putative dimerization interface [polypeptide binding]; other site 296591012884 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 296591012885 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 296591012886 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 296591012887 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 296591012888 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 296591012889 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 296591012890 active site 296591012891 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591012892 NMT1-like family; Region: NMT1_2; cl15260 296591012893 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 296591012894 FecR protein; Region: FecR; pfam04773 296591012895 ATP-dependent protease La; Region: lon; TIGR00763 296591012896 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 296591012897 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 296591012898 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591012899 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 296591012900 NAD(P) binding pocket [chemical binding]; other site 296591012901 Helix-turn-helix domains; Region: HTH; cl00088 296591012902 ornithine cyclodeaminase; Validated; Region: PRK07589 296591012903 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591012904 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 296591012905 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 296591012906 Helix-turn-helix domains; Region: HTH; cl00088 296591012907 Helix-turn-helix domains; Region: HTH; cl00088 296591012908 Integrase core domain; Region: rve; cl01316 296591012909 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 296591012910 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 296591012911 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 296591012912 homotrimer interaction site [polypeptide binding]; other site 296591012913 putative active site [active] 296591012914 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 296591012915 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 296591012916 Walker A/P-loop; other site 296591012917 ATP binding site [chemical binding]; other site 296591012918 Q-loop/lid; other site 296591012919 ABC transporter signature motif; other site 296591012920 Walker B; other site 296591012921 D-loop; other site 296591012922 H-loop/switch region; other site 296591012923 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591012924 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 296591012925 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 296591012926 Walker A/P-loop; other site 296591012927 ATP binding site [chemical binding]; other site 296591012928 Q-loop/lid; other site 296591012929 ABC transporter signature motif; other site 296591012930 Walker B; other site 296591012931 D-loop; other site 296591012932 H-loop/switch region; other site 296591012933 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591012934 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 296591012935 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 296591012936 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 296591012937 dimer interface [polypeptide binding]; other site 296591012938 conserved gate region; other site 296591012939 putative PBP binding loops; other site 296591012940 ABC-ATPase subunit interface; other site 296591012941 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 296591012942 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 296591012943 dimer interface [polypeptide binding]; other site 296591012944 conserved gate region; other site 296591012945 putative PBP binding loops; other site 296591012946 ABC-ATPase subunit interface; other site 296591012947 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591012948 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 296591012949 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 296591012950 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 296591012951 FAD dependent oxidoreductase; Region: DAO; pfam01266 296591012952 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 296591012953 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 296591012954 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 296591012955 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591012956 FAD dependent oxidoreductase; Region: DAO; pfam01266 296591012957 Helix-turn-helix domains; Region: HTH; cl00088 296591012958 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 296591012959 dimerization interface [polypeptide binding]; other site 296591012960 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 296591012961 Helix-turn-helix domains; Region: HTH; cl00088 296591012962 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 296591012963 putative dimerization interface [polypeptide binding]; other site 296591012964 transketolase; Reviewed; Region: PRK12753 296591012965 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 296591012966 TPP-binding site [chemical binding]; other site 296591012967 dimer interface [polypeptide binding]; other site 296591012968 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 296591012969 PYR/PP interface [polypeptide binding]; other site 296591012970 dimer interface [polypeptide binding]; other site 296591012971 TPP binding site [chemical binding]; other site 296591012972 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 296591012973 transaldolase-like protein; Provisional; Region: PTZ00411 296591012974 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 296591012975 active site 296591012976 dimer interface [polypeptide binding]; other site 296591012977 catalytic residue [active] 296591012978 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591012979 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 296591012980 substrate binding pocket [chemical binding]; other site 296591012981 membrane-bound complex binding site; other site 296591012982 hinge residues; other site 296591012983 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 296591012984 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 296591012985 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 296591012986 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 296591012987 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591012988 Walker A/P-loop; other site 296591012989 ATP binding site [chemical binding]; other site 296591012990 Q-loop/lid; other site 296591012991 ABC transporter signature motif; other site 296591012992 Walker B; other site 296591012993 D-loop; other site 296591012994 H-loop/switch region; other site 296591012995 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 296591012996 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 296591012997 dimer interface [polypeptide binding]; other site 296591012998 conserved gate region; other site 296591012999 putative PBP binding loops; other site 296591013000 ABC-ATPase subunit interface; other site 296591013001 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 296591013002 Helix-turn-helix domains; Region: HTH; cl00088 296591013003 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 296591013004 dimerization interface [polypeptide binding]; other site 296591013005 galactonate dehydratase; Provisional; Region: PRK14017 296591013006 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 296591013007 active site pocket [active] 296591013008 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 296591013009 dimer interface [polypeptide binding]; other site 296591013010 conserved gate region; other site 296591013011 putative PBP binding loops; other site 296591013012 ABC-ATPase subunit interface; other site 296591013013 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 296591013014 dimer interface [polypeptide binding]; other site 296591013015 conserved gate region; other site 296591013016 ABC-ATPase subunit interface; other site 296591013017 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 296591013018 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 296591013019 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591013020 spermidine/putrescine ABC transporter ATP-binding subunit; Region: potA; TIGR01187 296591013021 Walker A/P-loop; other site 296591013022 ATP binding site [chemical binding]; other site 296591013023 Q-loop/lid; other site 296591013024 ABC transporter signature motif; other site 296591013025 Walker B; other site 296591013026 D-loop; other site 296591013027 H-loop/switch region; other site 296591013028 TOBE domain; Region: TOBE_2; cl01440 296591013029 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 296591013030 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 296591013031 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 296591013032 active site 296591013033 Transcriptional regulators [Transcription]; Region: PurR; COG1609 296591013034 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 296591013035 DNA binding site [nucleotide binding] 296591013036 domain linker motif; other site 296591013037 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 296591013038 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 296591013039 Amidase; Region: Amidase; cl11426 296591013040 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 296591013041 non-specific DNA binding site [nucleotide binding]; other site 296591013042 salt bridge; other site 296591013043 sequence-specific DNA binding site [nucleotide binding]; other site 296591013044 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 296591013045 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 296591013046 substrate-cofactor binding pocket; other site 296591013047 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591013048 catalytic residue [active] 296591013049 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591013050 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 296591013051 NAD(P) binding site [chemical binding]; other site 296591013052 active site 296591013053 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591013054 Helix-turn-helix domains; Region: HTH; cl00088 296591013055 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 296591013056 putative dimerization interface [polypeptide binding]; other site 296591013057 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 296591013058 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 296591013059 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 296591013060 Glutaminase; Region: Glutaminase; cl00907 296591013061 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 296591013062 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 296591013063 putative ligand binding site [chemical binding]; other site 296591013064 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 296591013065 homotrimer interaction site [polypeptide binding]; other site 296591013066 putative active site [active] 296591013067 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591013068 FAD dependent oxidoreductase; Region: DAO; pfam01266 296591013069 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 296591013070 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 296591013071 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 296591013072 FAD dependent oxidoreductase; Region: DAO; pfam01266 296591013073 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591013074 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 296591013075 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 296591013076 dimer interface [polypeptide binding]; other site 296591013077 conserved gate region; other site 296591013078 putative PBP binding loops; other site 296591013079 ABC-ATPase subunit interface; other site 296591013080 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 296591013081 dimer interface [polypeptide binding]; other site 296591013082 conserved gate region; other site 296591013083 putative PBP binding loops; other site 296591013084 ABC-ATPase subunit interface; other site 296591013085 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 296591013086 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591013087 Walker A/P-loop; other site 296591013088 ATP binding site [chemical binding]; other site 296591013089 Q-loop/lid; other site 296591013090 ABC transporter signature motif; other site 296591013091 Walker B; other site 296591013092 D-loop; other site 296591013093 H-loop/switch region; other site 296591013094 TOBE domain; Region: TOBE_2; cl01440 296591013095 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 296591013096 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 296591013097 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 296591013098 Helix-turn-helix domains; Region: HTH; cl00088 296591013099 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 296591013100 putative dimerization interface [polypeptide binding]; other site 296591013101 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 296591013102 trimer interface [polypeptide binding]; other site 296591013103 eyelet of channel; other site 296591013104 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 296591013105 aspartate racemase; Region: asp_race; TIGR00035 296591013106 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591013107 NMT1-like family; Region: NMT1_2; cl15260 296591013108 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 296591013109 argininosuccinate lyase; Provisional; Region: PRK00855 296591013110 active sites [active] 296591013111 tetramer interface [polypeptide binding]; other site 296591013112 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 296591013113 Helix-turn-helix domains; Region: HTH; cl00088 296591013114 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 296591013115 putative dimerization interface [polypeptide binding]; other site 296591013116 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 296591013117 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 296591013118 putative ligand binding site [chemical binding]; other site 296591013119 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591013120 NMT1-like family; Region: NMT1_2; cl15260 296591013121 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 296591013122 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 296591013123 Walker A/P-loop; other site 296591013124 ATP binding site [chemical binding]; other site 296591013125 Q-loop/lid; other site 296591013126 ABC transporter signature motif; other site 296591013127 Walker B; other site 296591013128 D-loop; other site 296591013129 H-loop/switch region; other site 296591013130 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591013131 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 296591013132 Walker A/P-loop; other site 296591013133 ATP binding site [chemical binding]; other site 296591013134 Q-loop/lid; other site 296591013135 ABC transporter signature motif; other site 296591013136 Walker B; other site 296591013137 D-loop; other site 296591013138 H-loop/switch region; other site 296591013139 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591013140 argininosuccinate lyase; Provisional; Region: PRK00855 296591013141 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 296591013142 active sites [active] 296591013143 tetramer interface [polypeptide binding]; other site 296591013144 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 296591013145 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 296591013146 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 296591013147 dimer interface [polypeptide binding]; other site 296591013148 conserved gate region; other site 296591013149 ABC-ATPase subunit interface; other site 296591013150 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 296591013151 dimer interface [polypeptide binding]; other site 296591013152 conserved gate region; other site 296591013153 ABC-ATPase subunit interface; other site 296591013154 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 296591013155 Helix-turn-helix domains; Region: HTH; cl00088 296591013156 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 296591013157 putative dimerization interface [polypeptide binding]; other site 296591013158 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 296591013159 homotrimer interaction site [polypeptide binding]; other site 296591013160 putative active site [active] 296591013161 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 296591013162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591013163 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 296591013164 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 296591013165 FAD dependent oxidoreductase; Region: DAO; pfam01266 296591013166 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 296591013167 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 296591013168 Walker A/P-loop; other site 296591013169 ATP binding site [chemical binding]; other site 296591013170 Q-loop/lid; other site 296591013171 ABC transporter signature motif; other site 296591013172 Walker B; other site 296591013173 D-loop; other site 296591013174 H-loop/switch region; other site 296591013175 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591013176 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 296591013177 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 296591013178 Walker A/P-loop; other site 296591013179 ATP binding site [chemical binding]; other site 296591013180 Q-loop/lid; other site 296591013181 ABC transporter signature motif; other site 296591013182 Walker B; other site 296591013183 D-loop; other site 296591013184 H-loop/switch region; other site 296591013185 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591013186 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 296591013187 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 296591013188 dimer interface [polypeptide binding]; other site 296591013189 conserved gate region; other site 296591013190 putative PBP binding loops; other site 296591013191 ABC-ATPase subunit interface; other site 296591013192 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 296591013193 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 296591013194 octamer interface [polypeptide binding]; other site 296591013195 active site 296591013196 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 296591013197 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 296591013198 dimer interface [polypeptide binding]; other site 296591013199 conserved gate region; other site 296591013200 putative PBP binding loops; other site 296591013201 ABC-ATPase subunit interface; other site 296591013202 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 296591013203 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 296591013204 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 296591013205 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 296591013206 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 296591013207 Helix-turn-helix domains; Region: HTH; cl00088 296591013208 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 296591013209 putative dimerization interface [polypeptide binding]; other site 296591013210 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 296591013211 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 296591013212 putative ligand binding site [chemical binding]; other site 296591013213 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 296591013214 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 296591013215 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 296591013216 Helix-turn-helix domains; Region: HTH; cl00088 296591013217 The C-terminal substrate binding domain of LysR, transcriptional regulator for lysine biosynthesis, contains the type 2 periplasmic binding fold; Region: PBP2_LysR; cd08456 296591013218 putative dimerization interface [polypeptide binding]; other site 296591013219 galactonate dehydratase; Provisional; Region: PRK14017 296591013220 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 296591013221 active site pocket [active] 296591013222 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 296591013223 homotrimer interaction site [polypeptide binding]; other site 296591013224 putative active site [active] 296591013225 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 296591013226 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 296591013227 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 296591013228 FAD dependent oxidoreductase; Region: DAO; pfam01266 296591013229 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 296591013230 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 296591013231 dimer interface [polypeptide binding]; other site 296591013232 conserved gate region; other site 296591013233 putative PBP binding loops; other site 296591013234 ABC-ATPase subunit interface; other site 296591013235 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 296591013236 dimer interface [polypeptide binding]; other site 296591013237 conserved gate region; other site 296591013238 putative PBP binding loops; other site 296591013239 ABC-ATPase subunit interface; other site 296591013240 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 296591013241 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591013242 Walker A/P-loop; other site 296591013243 ATP binding site [chemical binding]; other site 296591013244 Q-loop/lid; other site 296591013245 ABC transporter signature motif; other site 296591013246 Walker B; other site 296591013247 D-loop; other site 296591013248 H-loop/switch region; other site 296591013249 TOBE domain; Region: TOBE_2; cl01440 296591013250 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 296591013251 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 296591013252 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 296591013253 Helix-turn-helix domains; Region: HTH; cl00088 296591013254 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 296591013255 putative dimerization interface [polypeptide binding]; other site 296591013256 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591013257 NMT1-like family; Region: NMT1_2; cl15260 296591013258 FAD dependent oxidoreductase; Region: DAO; pfam01266 296591013259 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591013260 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 296591013261 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 296591013262 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591013263 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 296591013264 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 296591013265 homotrimer interaction site [polypeptide binding]; other site 296591013266 putative active site [active] 296591013267 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 296591013268 Integrase core domain; Region: rve; cl01316 296591013269 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 296591013270 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591013271 AAA domain; Region: AAA_22; pfam13401 296591013272 Response regulator receiver domain; Region: Response_reg; pfam00072 296591013273 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 296591013274 active site 296591013275 phosphorylation site [posttranslational modification] 296591013276 intermolecular recognition site; other site 296591013277 dimerization interface [polypeptide binding]; other site 296591013278 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 296591013279 Helix-turn-helix domains; Region: HTH; cl00088 296591013280 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 296591013281 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 296591013282 dimerization interface [polypeptide binding]; other site 296591013283 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 296591013284 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 296591013285 dimer interface [polypeptide binding]; other site 296591013286 phosphorylation site [posttranslational modification] 296591013287 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 296591013288 ATP binding site [chemical binding]; other site 296591013289 Mg2+ binding site [ion binding]; other site 296591013290 G-X-G motif; other site 296591013291 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 296591013292 16S rRNA methyltransferase B; Provisional; Region: PRK10901 296591013293 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 296591013294 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 296591013295 S-adenosylmethionine binding site [chemical binding]; other site 296591013296 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 296591013297 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 296591013298 Cytochrome c; Region: Cytochrom_C; cl11414 296591013299 Peptidase family M48; Region: Peptidase_M48; cl12018 296591013300 LemA family; Region: LemA; cl00742 296591013301 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 296591013302 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 296591013303 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 296591013304 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 296591013305 DNA-directed RNA polymerase, beta'' subunit; Region: rpoC2_cyan; TIGR02388 296591013306 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 296591013307 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 296591013308 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 296591013309 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 296591013310 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 296591013311 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 296591013312 DNA binding site [nucleotide binding] 296591013313 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 296591013314 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 296591013315 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 296591013316 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 296591013317 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 296591013318 RPB12 interaction site [polypeptide binding]; other site 296591013319 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 296591013320 RPB11 interaction site [polypeptide binding]; other site 296591013321 RPB12 interaction site [polypeptide binding]; other site 296591013322 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 296591013323 RPB3 interaction site [polypeptide binding]; other site 296591013324 RPB1 interaction site [polypeptide binding]; other site 296591013325 RPB11 interaction site [polypeptide binding]; other site 296591013326 RPB10 interaction site [polypeptide binding]; other site 296591013327 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 296591013328 peripheral dimer interface [polypeptide binding]; other site 296591013329 core dimer interface [polypeptide binding]; other site 296591013330 L10 interface [polypeptide binding]; other site 296591013331 L11 interface [polypeptide binding]; other site 296591013332 putative EF-Tu interaction site [polypeptide binding]; other site 296591013333 putative EF-G interaction site [polypeptide binding]; other site 296591013334 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 296591013335 23S rRNA interface [nucleotide binding]; other site 296591013336 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 296591013337 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 296591013338 mRNA/rRNA interface [nucleotide binding]; other site 296591013339 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 296591013340 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 296591013341 23S rRNA interface [nucleotide binding]; other site 296591013342 L7/L12 interface [polypeptide binding]; other site 296591013343 putative thiostrepton binding site; other site 296591013344 L25 interface [polypeptide binding]; other site 296591013345 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 296591013346 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 296591013347 putative homodimer interface [polypeptide binding]; other site 296591013348 KOW motif; Region: KOW; cl00354 296591013349 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 296591013350 elongation factor Tu; Reviewed; Region: PRK00049 296591013351 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 296591013352 G1 box; other site 296591013353 GEF interaction site [polypeptide binding]; other site 296591013354 GTP/Mg2+ binding site [chemical binding]; other site 296591013355 Switch I region; other site 296591013356 G2 box; other site 296591013357 G3 box; other site 296591013358 Switch II region; other site 296591013359 G4 box; other site 296591013360 G5 box; other site 296591013361 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 296591013362 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 296591013363 Antibiotic Binding Site [chemical binding]; other site 296591013364 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 296591013365 ligand binding site [chemical binding]; other site 296591013366 active site 296591013367 UGI interface [polypeptide binding]; other site 296591013368 catalytic site [active] 296591013369 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 296591013370 active site 296591013371 ribulose/triose binding site [chemical binding]; other site 296591013372 phosphate binding site [ion binding]; other site 296591013373 substrate (anthranilate) binding pocket [chemical binding]; other site 296591013374 product (indole) binding pocket [chemical binding]; other site 296591013375 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 296591013376 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 296591013377 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 296591013378 LysE type translocator; Region: LysE; cl00565 296591013379 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 296591013380 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 296591013381 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591013382 catalytic residue [active] 296591013383 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 296591013384 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 296591013385 glutamine binding [chemical binding]; other site 296591013386 catalytic triad [active] 296591013387 Chorismate mutase type II; Region: CM_2; cl00693 296591013388 anthranilate synthase component I; Provisional; Region: PRK13565 296591013389 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 296591013390 chorismate binding enzyme; Region: Chorismate_bind; cl10555 296591013391 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 296591013392 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 296591013393 phosphoglycolate phosphatase; Provisional; Region: PRK13222 296591013394 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 296591013395 motif II; other site 296591013396 CHASE3 domain; Region: CHASE3; cl05000 296591013397 PAS domain S-box; Region: sensory_box; TIGR00229 296591013398 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 296591013399 putative active site [active] 296591013400 heme pocket [chemical binding]; other site 296591013401 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 296591013402 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 296591013403 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 296591013404 dimer interface [polypeptide binding]; other site 296591013405 phosphorylation site [posttranslational modification] 296591013406 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 296591013407 ATP binding site [chemical binding]; other site 296591013408 Mg2+ binding site [ion binding]; other site 296591013409 G-X-G motif; other site 296591013410 Response regulator receiver domain; Region: Response_reg; pfam00072 296591013411 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 296591013412 active site 296591013413 phosphorylation site [posttranslational modification] 296591013414 intermolecular recognition site; other site 296591013415 dimerization interface [polypeptide binding]; other site 296591013416 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 296591013417 Response regulator receiver domain; Region: Response_reg; pfam00072 296591013418 active site 296591013419 phosphorylation site [posttranslational modification] 296591013420 intermolecular recognition site; other site 296591013421 dimerization interface [polypeptide binding]; other site 296591013422 Response regulator receiver domain; Region: Response_reg; pfam00072 296591013423 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 296591013424 active site 296591013425 phosphorylation site [posttranslational modification] 296591013426 intermolecular recognition site; other site 296591013427 dimerization interface [polypeptide binding]; other site 296591013428 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 296591013429 cyclase homology domain; Region: CHD; cd07302 296591013430 nucleotidyl binding site; other site 296591013431 metal binding site [ion binding]; metal-binding site 296591013432 dimer interface [polypeptide binding]; other site 296591013433 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 296591013434 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 296591013435 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 296591013436 substrate binding site [chemical binding]; other site 296591013437 hexamer interface [polypeptide binding]; other site 296591013438 metal binding site [ion binding]; metal-binding site 296591013439 Protein of unknown function (DUF525); Region: DUF525; cl01119 296591013440 Site-specific recombinase; Region: SpecificRecomb; cl15411 296591013441 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 296591013442 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 296591013443 thiamine monophosphate kinase; Provisional; Region: PRK05731 296591013444 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 296591013445 ATP binding site [chemical binding]; other site 296591013446 dimerization interface [polypeptide binding]; other site 296591013447 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 296591013448 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591013449 Helix-turn-helix domains; Region: HTH; cl00088 296591013450 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 296591013451 putative effector binding pocket; other site 296591013452 dimerization interface [polypeptide binding]; other site 296591013453 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 296591013454 tetramer interfaces [polypeptide binding]; other site 296591013455 binuclear metal-binding site [ion binding]; other site 296591013456 Competence-damaged protein; Region: CinA; cl00666 296591013457 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 296591013458 short chain dehydrogenase; Validated; Region: PRK05855 296591013459 OsmC-like protein; Region: OsmC; cl00767 296591013460 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 296591013461 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 296591013462 THUMP domain; Region: THUMP; cl12076 296591013463 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591013464 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 296591013465 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 296591013466 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 296591013467 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 296591013468 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 296591013469 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 296591013470 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 296591013471 Walker A/P-loop; other site 296591013472 ATP binding site [chemical binding]; other site 296591013473 Q-loop/lid; other site 296591013474 ABC transporter signature motif; other site 296591013475 Walker B; other site 296591013476 D-loop; other site 296591013477 H-loop/switch region; other site 296591013478 OstA-like protein; Region: OstA; cl00844 296591013479 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 296591013480 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 296591013481 catalytic residues [active] 296591013482 hinge region; other site 296591013483 alpha helical domain; other site 296591013484 Sporulation related domain; Region: SPOR; cl10051 296591013485 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 296591013486 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 296591013487 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 296591013488 active site 296591013489 HIGH motif; other site 296591013490 KMSK motif region; other site 296591013491 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 296591013492 tRNA binding surface [nucleotide binding]; other site 296591013493 anticodon binding site; other site 296591013494 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 296591013495 Helix-turn-helix domains; Region: HTH; cl00088 296591013496 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 296591013497 dimerization interface [polypeptide binding]; other site 296591013498 LysE type translocator; Region: LysE; cl00565 296591013499 LysR family transcriptional regulator; Provisional; Region: PRK14997 296591013500 Helix-turn-helix domains; Region: HTH; cl00088 296591013501 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 296591013502 putative effector binding pocket; other site 296591013503 dimerization interface [polypeptide binding]; other site 296591013504 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 296591013505 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 296591013506 motif II; other site 296591013507 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 296591013508 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 296591013509 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 296591013510 shikimate binding site; other site 296591013511 NAD(P) binding site [chemical binding]; other site 296591013512 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 296591013513 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 296591013514 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 296591013515 dimer interface [polypeptide binding]; other site 296591013516 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 296591013517 active site 296591013518 Fe binding site [ion binding]; other site 296591013519 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 296591013520 trimer interface [polypeptide binding]; other site 296591013521 active site 296591013522 dimer interface [polypeptide binding]; other site 296591013523 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 296591013524 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591013525 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 296591013526 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591013527 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591013528 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 296591013529 DctM-like transporters; Region: DctM; pfam06808 296591013530 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 296591013531 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591013532 Helix-turn-helix domains; Region: HTH; cl00088 296591013533 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 296591013534 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 296591013535 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 296591013536 shikimate binding site; other site 296591013537 NAD(P) binding site [chemical binding]; other site 296591013538 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591013539 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591013540 (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 296591013541 active site 296591013542 catalytic site [active] 296591013543 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 296591013544 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591013545 active site 296591013546 metal binding site [ion binding]; metal-binding site 296591013547 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 296591013548 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591013549 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 296591013550 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591013551 Helix-turn-helix domains; Region: HTH; cl00088 296591013552 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 296591013553 substrate binding pocket [chemical binding]; other site 296591013554 dimerization interface [polypeptide binding]; other site 296591013555 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 296591013556 active site 296591013557 metal binding site [ion binding]; metal-binding site 296591013558 Bacterial Ig-like domain; Region: Big_5; cl01012 296591013559 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 296591013560 Strictosidine synthase; Region: Str_synth; pfam03088 296591013561 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591013562 NMT1-like family; Region: NMT1_2; cl15260 296591013563 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 296591013564 active site 296591013565 catalytic residues [active] 296591013566 metal binding site [ion binding]; metal-binding site 296591013567 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591013568 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591013569 Transcriptional regulator [Transcription]; Region: IclR; COG1414 296591013570 Helix-turn-helix domains; Region: HTH; cl00088 296591013571 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591013572 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 296591013573 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 296591013574 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 296591013575 motif II; other site 296591013576 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 296591013577 active site 296591013578 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 296591013579 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591013580 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 296591013581 Walker A motif; other site 296591013582 ATP binding site [chemical binding]; other site 296591013583 Walker B motif; other site 296591013584 arginine finger; other site 296591013585 Helix-turn-helix domains; Region: HTH; cl00088 296591013586 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591013587 NAD-dependent benzaldehyde dehydrogenase II-like; Region: ALDH_BenzADH; cd07152 296591013588 NAD(P) binding site [chemical binding]; other site 296591013589 catalytic residues [active] 296591013590 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 296591013591 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 296591013592 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 296591013593 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 296591013594 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 296591013595 metal binding site [ion binding]; metal-binding site 296591013596 putative dimer interface [polypeptide binding]; other site 296591013597 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591013598 NMT1-like family; Region: NMT1_2; cl15260 296591013599 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591013600 Helix-turn-helix domains; Region: HTH; cl00088 296591013601 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 296591013602 dimerization interface [polypeptide binding]; other site 296591013603 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591013604 NMT1-like family; Region: NMT1_2; cl15260 296591013605 Transcriptional regulators [Transcription]; Region: PurR; COG1609 296591013606 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 296591013607 DNA binding site [nucleotide binding] 296591013608 domain linker motif; other site 296591013609 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 296591013610 putative dimerization interface [polypeptide binding]; other site 296591013611 putative ligand binding site [chemical binding]; other site 296591013612 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 296591013613 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591013614 Helix-turn-helix domains; Region: HTH; cl00088 296591013615 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 296591013616 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 296591013617 active site 1 [active] 296591013618 dimer interface [polypeptide binding]; other site 296591013619 hexamer interface [polypeptide binding]; other site 296591013620 active site 2 [active] 296591013621 Transcriptional regulator [Transcription]; Region: IclR; COG1414 296591013622 Helix-turn-helix domains; Region: HTH; cl00088 296591013623 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591013624 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 296591013625 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 296591013626 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591013627 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 296591013628 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591013629 NMT1-like family; Region: NMT1_2; cl15260 296591013630 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 296591013631 putative substrate translocation pore; other site 296591013632 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 296591013633 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 296591013634 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 296591013635 putative active site [active] 296591013636 putative dimer interface [polypeptide binding]; other site 296591013637 glutathione synthetase; Provisional; Region: PRK05246 296591013638 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 296591013639 ATP-grasp domain; Region: ATP-grasp_4; cl03087 296591013640 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 296591013641 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 296591013642 AMP-binding enzyme; Region: AMP-binding; cl15778 296591013643 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591013644 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 296591013645 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 296591013646 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 296591013647 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 296591013648 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 296591013649 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591013650 NAD(P) binding site [chemical binding]; other site 296591013651 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 296591013652 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591013653 tetrameric interface [polypeptide binding]; other site 296591013654 NAD binding site [chemical binding]; other site 296591013655 catalytic residues [active] 296591013656 Helix-turn-helix domains; Region: HTH; cl00088 296591013657 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 296591013658 putative effector binding pocket; other site 296591013659 dimerization interface [polypeptide binding]; other site 296591013660 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 296591013661 nudix motif; other site 296591013662 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 296591013663 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 296591013664 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591013665 NMT1-like family; Region: NMT1_2; cl15260 296591013666 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591013667 Helix-turn-helix domains; Region: HTH; cl00088 296591013668 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 296591013669 putative dimerization interface [polypeptide binding]; other site 296591013670 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591013671 NMT1-like family; Region: NMT1_2; cl15260 296591013672 Uncharacterized conserved protein [Function unknown]; Region: COG3777 296591013673 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 296591013674 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 296591013675 active site 2 [active] 296591013676 active site 1 [active] 296591013677 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591013678 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591013679 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 296591013680 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 296591013681 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 296591013682 tetramer interface [polypeptide binding]; other site 296591013683 active site 296591013684 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 296591013685 trimer interface [polypeptide binding]; other site 296591013686 eyelet of channel; other site 296591013687 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 296591013688 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 296591013689 Ligand Binding Site [chemical binding]; other site 296591013690 Helix-turn-helix domains; Region: HTH; cl00088 296591013691 LysR family transcriptional regulator; Provisional; Region: PRK14997 296591013692 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 296591013693 putative effector binding pocket; other site 296591013694 dimerization interface [polypeptide binding]; other site 296591013695 glyoxylate carboligase; Provisional; Region: PRK11269 296591013696 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 296591013697 PYR/PP interface [polypeptide binding]; other site 296591013698 dimer interface [polypeptide binding]; other site 296591013699 TPP binding site [chemical binding]; other site 296591013700 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 296591013701 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 296591013702 TPP-binding site [chemical binding]; other site 296591013703 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 296591013704 tartronate semialdehyde reductase; Provisional; Region: PRK15059 296591013705 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591013706 MltA-interacting protein MipA; Region: MipA; cl01504 296591013707 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 296591013708 dimer interface [polypeptide binding]; other site 296591013709 ssDNA binding site [nucleotide binding]; other site 296591013710 tetramer (dimer of dimers) interface [polypeptide binding]; other site 296591013711 Major Facilitator Superfamily; Region: MFS_1; pfam07690 296591013712 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 296591013713 putative substrate translocation pore; other site 296591013714 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 296591013715 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 296591013716 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 296591013717 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 296591013718 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 296591013719 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 296591013720 Walker A motif; other site 296591013721 ATP binding site [chemical binding]; other site 296591013722 Walker B motif; other site 296591013723 arginine finger; other site 296591013724 Helix-turn-helix domains; Region: HTH; cl00088 296591013725 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 296591013726 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591013727 NAD(P) binding site [chemical binding]; other site 296591013728 catalytic residues [active] 296591013729 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 296591013730 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 296591013731 active site 296591013732 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 296591013733 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591013734 Transcriptional regulators [Transcription]; Region: PurR; COG1609 296591013735 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 296591013736 DNA binding site [nucleotide binding] 296591013737 domain linker motif; other site 296591013738 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 296591013739 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 296591013740 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 296591013741 Transposase; Region: DDE_Tnp_ISL3; pfam01610 296591013742 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 296591013743 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591013744 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591013745 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 296591013746 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 296591013747 nucleophile elbow; other site 296591013748 transcriptional regulator; Provisional; Region: PRK10632 296591013749 Helix-turn-helix domains; Region: HTH; cl00088 296591013750 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 296591013751 putative effector binding pocket; other site 296591013752 dimerization interface [polypeptide binding]; other site 296591013753 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 296591013754 NADH(P)-binding; Region: NAD_binding_10; pfam13460 296591013755 NAD binding site [chemical binding]; other site 296591013756 substrate binding site [chemical binding]; other site 296591013757 putative active site [active] 296591013758 potassium uptake protein; Region: kup; TIGR00794 296591013759 K+ potassium transporter; Region: K_trans; cl15781 296591013760 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 296591013761 Glutamate-cysteine ligase; Region: GshA; pfam08886 296591013762 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 296591013763 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 296591013764 putative catalytic cysteine [active] 296591013765 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 296591013766 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 296591013767 putative FMN binding site [chemical binding]; other site 296591013768 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 296591013769 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 296591013770 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 296591013771 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 296591013772 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 296591013773 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 296591013774 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 296591013775 FMN binding site [chemical binding]; other site 296591013776 substrate binding site [chemical binding]; other site 296591013777 putative catalytic residue [active] 296591013778 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 296591013779 active site clefts [active] 296591013780 zinc binding site [ion binding]; other site 296591013781 dimer interface [polypeptide binding]; other site 296591013782 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 296591013783 PPIC-type PPIASE domain; Region: Rotamase; cl08278 296591013784 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 296591013785 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 296591013786 nitrate reductase, beta subunit; Region: narH; TIGR01660 296591013787 4Fe-4S binding domain; Region: Fer4; cl02805 296591013788 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 296591013789 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 296591013790 [4Fe-4S] binding site [ion binding]; other site 296591013791 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 296591013792 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 296591013793 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 296591013794 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 296591013795 molybdopterin cofactor binding site; other site 296591013796 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 296591013797 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 296591013798 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 296591013799 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 296591013800 putative substrate translocation pore; other site 296591013801 transcriptional regulator NarL; Provisional; Region: PRK10651 296591013802 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 296591013803 active site 296591013804 phosphorylation site [posttranslational modification] 296591013805 intermolecular recognition site; other site 296591013806 dimerization interface [polypeptide binding]; other site 296591013807 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 296591013808 DNA binding residues [nucleotide binding] 296591013809 dimerization interface [polypeptide binding]; other site 296591013810 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 296591013811 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 296591013812 dimerization interface [polypeptide binding]; other site 296591013813 GAF domain; Region: GAF; cl15785 296591013814 Histidine kinase; Region: HisKA_3; pfam07730 296591013815 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 296591013816 ATP binding site [chemical binding]; other site 296591013817 Mg2+ binding site [ion binding]; other site 296591013818 G-X-G motif; other site 296591013819 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 296591013820 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 296591013821 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 296591013822 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 296591013823 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 296591013824 putative active site [active] 296591013825 putative NTP binding site [chemical binding]; other site 296591013826 putative nucleic acid binding site [nucleotide binding]; other site 296591013827 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 296591013828 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 296591013829 active site 296591013830 ornithine cyclodeaminase; Validated; Region: PRK07589 296591013831 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591013832 Arginase family; Region: Arginase; cl00306 296591013833 Lipopolysaccharide-assembly; Region: LptE; cl01125 296591013834 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 296591013835 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 296591013836 HIGH motif; other site 296591013837 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 296591013838 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 296591013839 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 296591013840 active site 296591013841 KMSKS motif; other site 296591013842 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 296591013843 tRNA binding surface [nucleotide binding]; other site 296591013844 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 296591013845 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 296591013846 dihydrodipicolinate reductase; Provisional; Region: PRK00048 296591013847 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591013848 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 296591013849 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 296591013850 ferric uptake regulator; Provisional; Region: fur; PRK09462 296591013851 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 296591013852 metal binding site 2 [ion binding]; metal-binding site 296591013853 putative DNA binding helix; other site 296591013854 metal binding site 1 [ion binding]; metal-binding site 296591013855 dimer interface [polypeptide binding]; other site 296591013856 structural Zn2+ binding site [ion binding]; other site 296591013857 HPr kinase/phosphorylase; Provisional; Region: PRK05428 296591013858 DRTGG domain; Region: DRTGG; cl12147 296591013859 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 296591013860 Hpr binding site; other site 296591013861 active site 296591013862 homohexamer subunit interaction site [polypeptide binding]; other site 296591013863 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 296591013864 active site 296591013865 phosphorylation site [posttranslational modification] 296591013866 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 296591013867 30S subunit binding site; other site 296591013868 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 296591013869 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 296591013870 active site 296591013871 nucleophile elbow; other site 296591013872 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 296591013873 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 296591013874 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 296591013875 active site 296591013876 dimer interface [polypeptide binding]; other site 296591013877 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 296591013878 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 296591013879 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 296591013880 putative active site [active] 296591013881 putative NTP binding site [chemical binding]; other site 296591013882 putative nucleic acid binding site [nucleotide binding]; other site 296591013883 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 296591013884 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 296591013885 active site 296591013886 EamA-like transporter family; Region: EamA; cl01037 296591013887 EamA-like transporter family; Region: EamA; cl01037 296591013888 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 296591013889 active site 296591013890 Fe-S cluster binding site [ion binding]; other site 296591013891 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 296591013892 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 296591013893 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 296591013894 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 296591013895 PQ loop repeat; Region: PQ-loop; cl12056 296591013896 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 296591013897 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 296591013898 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 296591013899 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 296591013900 ATP-grasp domain; Region: ATP-grasp_4; cl03087 296591013901 AIR carboxylase; Region: AIRC; cl00310 296591013902 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 296591013903 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 296591013904 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 296591013905 ATP binding site [chemical binding]; other site 296591013906 active site 296591013907 substrate binding site [chemical binding]; other site 296591013908 hypothetical protein; Provisional; Region: PRK08185 296591013909 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 296591013910 intersubunit interface [polypeptide binding]; other site 296591013911 active site 296591013912 zinc binding site [ion binding]; other site 296591013913 Na+ binding site [ion binding]; other site 296591013914 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 296591013915 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 296591013916 dimer interface [polypeptide binding]; other site 296591013917 phosphorylation site [posttranslational modification] 296591013918 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 296591013919 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 296591013920 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 296591013921 active site 296591013922 phosphorylation site [posttranslational modification] 296591013923 intermolecular recognition site; other site 296591013924 dimerization interface [polypeptide binding]; other site 296591013925 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 296591013926 DNA binding site [nucleotide binding] 296591013927 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 296591013928 active site 296591013929 pyruvate kinase; Provisional; Region: PRK05826 296591013930 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 296591013931 domain interfaces; other site 296591013932 active site 296591013933 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cl00198 296591013934 Phosphoglycerate kinase; Region: PGK; pfam00162 296591013935 substrate binding site [chemical binding]; other site 296591013936 hinge regions; other site 296591013937 ADP binding site [chemical binding]; other site 296591013938 catalytic site [active] 296591013939 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 296591013940 AzlC protein; Region: AzlC; cl00570 296591013941 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 296591013942 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 296591013943 putative active site [active] 296591013944 substrate binding site [chemical binding]; other site 296591013945 putative cosubstrate binding site; other site 296591013946 catalytic site [active] 296591013947 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 296591013948 substrate binding site [chemical binding]; other site 296591013949 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 296591013950 active site 296591013951 catalytic residues [active] 296591013952 metal binding site [ion binding]; metal-binding site 296591013953 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 296591013954 putative peptidoglycan binding site; other site 296591013955 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 296591013956 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 296591013957 Protein of unknown function (DUF494); Region: DUF494; cl01103 296591013958 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 296591013959 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 296591013960 Protein export membrane protein; Region: SecD_SecF; cl14618 296591013961 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 296591013962 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 296591013963 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 296591013964 Protein export membrane protein; Region: SecD_SecF; cl14618 296591013965 Preprotein translocase subunit; Region: YajC; cl00806 296591013966 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 296591013967 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 296591013968 dimer interface [polypeptide binding]; other site 296591013969 PYR/PP interface [polypeptide binding]; other site 296591013970 TPP binding site [chemical binding]; other site 296591013971 substrate binding site [chemical binding]; other site 296591013972 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 296591013973 TPP-binding site; other site 296591013974 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 296591013975 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 296591013976 Helix-turn-helix domains; Region: HTH; cl00088 296591013977 MltA specific insert domain; Region: MltA; cl08398 296591013978 3D domain; Region: 3D; cl01439 296591013979 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 296591013980 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 296591013981 active site 296591013982 phosphorylation site [posttranslational modification] 296591013983 intermolecular recognition site; other site 296591013984 dimerization interface [polypeptide binding]; other site 296591013985 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 296591013986 DNA binding residues [nucleotide binding] 296591013987 dimerization interface [polypeptide binding]; other site 296591013988 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 296591013989 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 296591013990 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 296591013991 putative active site [active] 296591013992 heme pocket [chemical binding]; other site 296591013993 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 296591013994 dimer interface [polypeptide binding]; other site 296591013995 phosphorylation site [posttranslational modification] 296591013996 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 296591013997 ATP binding site [chemical binding]; other site 296591013998 Mg2+ binding site [ion binding]; other site 296591013999 G-X-G motif; other site 296591014000 Predicted amidohydrolase [General function prediction only]; Region: COG0388 296591014001 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 296591014002 putative active site [active] 296591014003 catalytic triad [active] 296591014004 dimer interface [polypeptide binding]; other site 296591014005 TIGR02099 family protein; Region: TIGR02099 296591014006 AsmA-like C-terminal region; Region: AsmA_2; cl15864 296591014007 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 296591014008 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 296591014009 metal binding triad; other site 296591014010 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 296591014011 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 296591014012 metal binding triad; other site 296591014013 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 296591014014 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 296591014015 active site 296591014016 nucleotide binding site [chemical binding]; other site 296591014017 HIGH motif; other site 296591014018 KMSKS motif; other site 296591014019 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 296591014020 catalytic residues [active] 296591014021 dimer interface [polypeptide binding]; other site 296591014022 putative glutathione S-transferase; Provisional; Region: PRK10357 296591014023 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 296591014024 putative C-terminal domain interface [polypeptide binding]; other site 296591014025 putative GSH binding site (G-site) [chemical binding]; other site 296591014026 putative dimer interface [polypeptide binding]; other site 296591014027 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 296591014028 dimer interface [polypeptide binding]; other site 296591014029 N-terminal domain interface [polypeptide binding]; other site 296591014030 putative substrate binding pocket (H-site) [chemical binding]; other site 296591014031 adenylosuccinate lyase; Provisional; Region: PRK09285 296591014032 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 296591014033 tetramer interface [polypeptide binding]; other site 296591014034 active site 296591014035 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 296591014036 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 296591014037 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 296591014038 Integral membrane protein TerC family; Region: TerC; cl10468 296591014039 Membrane protein of unknown function; Region: DUF360; cl00850 296591014040 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 296591014041 Peptidase family M48; Region: Peptidase_M48; cl12018 296591014042 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 296591014043 trimer interface [polypeptide binding]; other site 296591014044 dimer interface [polypeptide binding]; other site 296591014045 putative active site [active] 296591014046 O-Antigen ligase; Region: Wzy_C; cl04850 296591014047 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 296591014048 O-Antigen ligase; Region: Wzy_C; cl04850 296591014049 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 296591014050 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 296591014051 Pilin (bacterial filament); Region: Pilin; pfam00114 296591014052 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 296591014053 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 296591014054 phosphopeptide binding site; other site 296591014055 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 296591014056 active site 296591014057 Integral membrane protein TerC family; Region: TerC; cl10468 296591014058 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 296591014059 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591014060 CoA-ligase; Region: Ligase_CoA; cl02894 296591014061 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 296591014062 ATP-grasp domain; Region: ATP-grasp_4; cl03087 296591014063 CoA-ligase; Region: Ligase_CoA; cl02894 296591014064 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 296591014065 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591014066 RecX family; Region: RecX; cl00936 296591014067 recombinase A; Provisional; Region: recA; PRK09354 296591014068 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 296591014069 hexamer interface [polypeptide binding]; other site 296591014070 Walker A motif; other site 296591014071 ATP binding site [chemical binding]; other site 296591014072 Walker B motif; other site 296591014073 Helix-turn-helix domains; Region: HTH; cl00088 296591014074 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 296591014075 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 296591014076 active site 296591014077 phosphorylation site [posttranslational modification] 296591014078 intermolecular recognition site; other site 296591014079 dimerization interface [polypeptide binding]; other site 296591014080 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 296591014081 DNA binding site [nucleotide binding] 296591014082 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 296591014083 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 296591014084 dimer interface [polypeptide binding]; other site 296591014085 phosphorylation site [posttranslational modification] 296591014086 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 296591014087 ATP binding site [chemical binding]; other site 296591014088 Mg2+ binding site [ion binding]; other site 296591014089 G-X-G motif; other site 296591014090 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 296591014091 EamA-like transporter family; Region: EamA; cl01037 296591014092 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 296591014093 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591014094 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 296591014095 NAD(P) binding site [chemical binding]; other site 296591014096 catalytic residues [active] 296591014097 Sulfatase; Region: Sulfatase; cl10460 296591014098 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 296591014099 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 296591014100 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591014101 DNA-binding site [nucleotide binding]; DNA binding site 296591014102 FCD domain; Region: FCD; cl11656 296591014103 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 296591014104 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 296591014105 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591014106 Walker A/P-loop; other site 296591014107 ATP binding site [chemical binding]; other site 296591014108 Q-loop/lid; other site 296591014109 ABC transporter signature motif; other site 296591014110 Walker B; other site 296591014111 D-loop; other site 296591014112 H-loop/switch region; other site 296591014113 TOBE domain; Region: TOBE_2; cl01440 296591014114 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 296591014115 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 296591014116 dimer interface [polypeptide binding]; other site 296591014117 conserved gate region; other site 296591014118 putative PBP binding loops; other site 296591014119 ABC-ATPase subunit interface; other site 296591014120 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 296591014121 dimer interface [polypeptide binding]; other site 296591014122 conserved gate region; other site 296591014123 putative PBP binding loops; other site 296591014124 ABC-ATPase subunit interface; other site 296591014125 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 296591014126 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 296591014127 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591014128 catalytic residue [active] 296591014129 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 296591014130 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 296591014131 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 296591014132 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591014133 Coenzyme A binding pocket [chemical binding]; other site 296591014134 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 296591014135 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 296591014136 putative active site [active] 296591014137 metal binding site [ion binding]; metal-binding site 296591014138 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 296591014139 Peptidase C26; Region: Peptidase_C26; pfam07722 296591014140 catalytic triad [active] 296591014141 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591014142 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 296591014143 NAD(P) binding site [chemical binding]; other site 296591014144 catalytic residues [active] 296591014145 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 296591014146 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 296591014147 Winged helix-turn helix; Region: HTH_29; pfam13551 296591014148 putative transposase OrfB; Reviewed; Region: PHA02517 296591014149 HTH-like domain; Region: HTH_21; pfam13276 296591014150 Integrase core domain; Region: rve; cl01316 296591014151 Integrase core domain; Region: rve_3; cl15866 296591014152 NMT1-like family; Region: NMT1_2; cl15260 296591014153 enoyl-CoA hydratase; Provisional; Region: PRK09245 296591014154 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 296591014155 substrate binding site [chemical binding]; other site 296591014156 oxyanion hole (OAH) forming residues; other site 296591014157 trimer interface [polypeptide binding]; other site 296591014158 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591014159 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 296591014160 Helix-turn-helix domains; Region: HTH; cl00088 296591014161 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 296591014162 dimerization interface [polypeptide binding]; other site 296591014163 substrate binding pocket [chemical binding]; other site 296591014164 DNA topoisomerase III; Provisional; Region: PRK14724 296591014165 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 296591014166 active site 296591014167 putative interdomain interaction site [polypeptide binding]; other site 296591014168 putative metal-binding site [ion binding]; other site 296591014169 putative nucleotide binding site [chemical binding]; other site 296591014170 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; cl11986 296591014171 domain I; other site 296591014172 phosphate binding site [ion binding]; other site 296591014173 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 296591014174 domain II; other site 296591014175 domain III; other site 296591014176 nucleotide binding site [chemical binding]; other site 296591014177 DNA binding groove [nucleotide binding] 296591014178 catalytic site [active] 296591014179 domain IV; other site 296591014180 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 296591014181 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 296591014182 SWIB/MDM2 domain; Region: SWIB; cl02489 296591014183 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 296591014184 catalytic residues [active] 296591014185 SET domain; Region: SET; cl02566 296591014186 biotin--protein ligase; Provisional; Region: PRK06955 296591014187 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 296591014188 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 296591014189 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591014190 Predicted esterase [General function prediction only]; Region: COG0400 296591014191 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 296591014192 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; cl00436 296591014193 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 296591014194 Transposase domain (DUF772); Region: DUF772; cl15789 296591014195 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; cl00436 296591014196 Helix-turn-helix domains; Region: HTH; cl00088 296591014197 Rrf2 family protein; Region: rrf2_super; TIGR00738 296591014198 Domain of unknown function DUF59; Region: DUF59; cl00941 296591014199 NnrS protein; Region: NnrS; cl01258 296591014200 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 296591014201 Haemolysin-III related; Region: HlyIII; cl03831 296591014202 Uncharacterized conserved protein [Function unknown]; Region: COG3760 296591014203 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 296591014204 putative deacylase active site [active] 296591014205 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 296591014206 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 296591014207 Helix-turn-helix domains; Region: HTH; cl00088 296591014208 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 296591014209 substrate binding pocket [chemical binding]; other site 296591014210 dimerization interface [polypeptide binding]; other site 296591014211 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]; Region: COG4231 296591014212 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 296591014213 dimer interface [polypeptide binding]; other site 296591014214 PYR/PP interface [polypeptide binding]; other site 296591014215 TPP binding site [chemical binding]; other site 296591014216 substrate binding site [chemical binding]; other site 296591014217 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 296591014218 TPP-binding site; other site 296591014219 putative indolepyruvate oxidoreductase subunit B; Reviewed; Region: PRK08312 296591014220 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 296591014221 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591014222 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 296591014223 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 296591014224 DctM-like transporters; Region: DctM; pfam06808 296591014225 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 296591014226 putative deacylase active site [active] 296591014227 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 296591014228 active site 296591014229 intersubunit interface [polypeptide binding]; other site 296591014230 catalytic residue [active] 296591014231 Response regulator receiver domain; Region: Response_reg; pfam00072 296591014232 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 296591014233 active site 296591014234 phosphorylation site [posttranslational modification] 296591014235 intermolecular recognition site; other site 296591014236 dimerization interface [polypeptide binding]; other site 296591014237 TIR domain; Region: TIR_2; cl15770 296591014238 TIR domain; Region: TIR_2; cl15770 296591014239 TIR domain; Region: TIR_2; cl15770 296591014240 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 296591014241 ligand binding site [chemical binding]; other site 296591014242 active site 296591014243 DTW domain; Region: DTW; cl01221 296591014244 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 296591014245 aspartate racemase; Region: asp_race; TIGR00035 296591014246 MltA-interacting protein MipA; Region: MipA; cl01504 296591014247 FAD dependent oxidoreductase; Region: DAO; pfam01266 296591014248 Fic family protein [Function unknown]; Region: COG3177 296591014249 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 296591014250 Fic/DOC family; Region: Fic; cl00960 296591014251 LysR family transcriptional regulator; Provisional; Region: PRK14997 296591014252 Helix-turn-helix domains; Region: HTH; cl00088 296591014253 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 296591014254 putative effector binding pocket; other site 296591014255 putative dimerization interface [polypeptide binding]; other site 296591014256 Pirin-related protein [General function prediction only]; Region: COG1741 296591014257 Cupin domain; Region: Cupin_2; cl09118 296591014258 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 296591014259 Isochorismatase family; Region: Isochorismatase; pfam00857 296591014260 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 296591014261 catalytic triad [active] 296591014262 dimer interface [polypeptide binding]; other site 296591014263 conserved cis-peptide bond; other site 296591014264 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 296591014265 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 296591014266 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 296591014267 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 296591014268 NADP binding site [chemical binding]; other site 296591014269 active site 296591014270 steroid binding site; other site 296591014271 short chain dehydrogenase; Provisional; Region: PRK12937 296591014272 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 296591014273 NADP binding site [chemical binding]; other site 296591014274 homodimer interface [polypeptide binding]; other site 296591014275 active site 296591014276 substrate binding site [chemical binding]; other site 296591014277 transcriptional regulator; Provisional; Region: PRK10632 296591014278 Helix-turn-helix domains; Region: HTH; cl00088 296591014279 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 296591014280 putative effector binding pocket; other site 296591014281 putative dimerization interface [polypeptide binding]; other site 296591014282 Helix-turn-helix domains; Region: HTH; cl00088 296591014283 WHG domain; Region: WHG; pfam13305 296591014284 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 296591014285 dimer interface [polypeptide binding]; other site 296591014286 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 296591014287 dimer interface [polypeptide binding]; other site 296591014288 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591014289 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 296591014290 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 296591014291 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 296591014292 N-terminal domain interface [polypeptide binding]; other site 296591014293 dimer interface [polypeptide binding]; other site 296591014294 substrate binding pocket (H-site) [chemical binding]; other site 296591014295 Protein of unknown function (DUF1579); Region: DUF1579; pfam07617 296591014296 Pirin-related protein [General function prediction only]; Region: COG1741 296591014297 Cupin domain; Region: Cupin_2; cl09118 296591014298 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 296591014299 Electron transfer DM13; Region: DM13; cl02735 296591014300 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 296591014301 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 296591014302 Walker A/P-loop; other site 296591014303 ATP binding site [chemical binding]; other site 296591014304 Q-loop/lid; other site 296591014305 ABC transporter signature motif; other site 296591014306 Walker B; other site 296591014307 D-loop; other site 296591014308 H-loop/switch region; other site 296591014309 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 296591014310 ABC-ATPase subunit interface; other site 296591014311 dimer interface [polypeptide binding]; other site 296591014312 putative PBP binding regions; other site 296591014313 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 296591014314 ABC-ATPase subunit interface; other site 296591014315 dimer interface [polypeptide binding]; other site 296591014316 putative PBP binding regions; other site 296591014317 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 296591014318 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 296591014319 siderophore binding site; other site 296591014320 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 296591014321 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 296591014322 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 296591014323 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE; Region: PLPDE_III_PvsE_like; cd06843 296591014324 dimer interface [polypeptide binding]; other site 296591014325 active site 296591014326 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 296591014327 catalytic residues [active] 296591014328 substrate binding site [chemical binding]; other site 296591014329 IucA / IucC family; Region: IucA_IucC; pfam04183 296591014330 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 296591014331 drug efflux system protein MdtG; Provisional; Region: PRK09874 296591014332 IucA / IucC family; Region: IucA_IucC; pfam04183 296591014333 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 296591014334 argininosuccinate lyase; Provisional; Region: PRK02186 296591014335 ATP-grasp domain; Region: ATP-grasp_4; cl03087 296591014336 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 296591014337 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 296591014338 N-terminal plug; other site 296591014339 ligand-binding site [chemical binding]; other site 296591014340 DoxX; Region: DoxX; cl00976 296591014341 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 296591014342 Protein of unknown function (DUF692); Region: DUF692; cl01263 296591014343 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 296591014344 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 296591014345 Transposase; Region: DDE_Tnp_ISL3; pfam01610 296591014346 RNA polymerase sigma factor; Provisional; Region: PRK12512 296591014347 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 296591014348 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 296591014349 DNA binding residues [nucleotide binding] 296591014350 Protein of unknown function (DUF1109); Region: DUF1109; cl02071 296591014351 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 296591014352 metal-binding site [ion binding] 296591014353 MerT mercuric transport protein; Region: MerT; cl03578 296591014354 putative transcriptional regulator MerR; Provisional; Region: PRK13752 296591014355 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 296591014356 DNA binding residues [nucleotide binding] 296591014357 dimer interface [polypeptide binding]; other site 296591014358 mercury binding site [ion binding]; other site 296591014359 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 296591014360 putative hydrophobic ligand binding site [chemical binding]; other site 296591014361 Low molecular weight phosphatase family; Region: LMWPc; cl00105 296591014362 active site 296591014363 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 296591014364 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 296591014365 DNA binding residues [nucleotide binding] 296591014366 dimer interface [polypeptide binding]; other site 296591014367 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591014368 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 296591014369 Putative transposase; Region: Y2_Tnp; pfam04986 296591014370 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 296591014371 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 296591014372 Int/Topo IB signature motif; other site 296591014373 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 296591014374 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 296591014375 substrate binding pocket [chemical binding]; other site 296591014376 membrane-bound complex binding site; other site 296591014377 hinge residues; other site 296591014378 DoxX; Region: DoxX; cl00976 296591014379 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 296591014380 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 296591014381 active site 296591014382 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 296591014383 Isochorismatase family; Region: Isochorismatase; pfam00857 296591014384 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 296591014385 catalytic triad [active] 296591014386 dimer interface [polypeptide binding]; other site 296591014387 conserved cis-peptide bond; other site 296591014388 Helix-turn-helix domains; Region: HTH; cl00088 296591014389 transcriptional activator TtdR; Provisional; Region: PRK09801 296591014390 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 296591014391 putative effector binding pocket; other site 296591014392 dimerization interface [polypeptide binding]; other site 296591014393 LysR family transcriptional regulator; Provisional; Region: PRK14997 296591014394 Helix-turn-helix domains; Region: HTH; cl00088 296591014395 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 296591014396 putative effector binding pocket; other site 296591014397 putative dimerization interface [polypeptide binding]; other site 296591014398 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 296591014399 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 296591014400 active site 296591014401 putative substrate binding pocket [chemical binding]; other site 296591014402 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 296591014403 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 296591014404 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 296591014405 dimer interface [polypeptide binding]; other site 296591014406 active site 296591014407 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 296591014408 substrate binding site [chemical binding]; other site 296591014409 catalytic residue [active] 296591014410 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 296591014411 homotrimer interaction site [polypeptide binding]; other site 296591014412 putative active site [active] 296591014413 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 296591014414 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 296591014415 dimer interface [polypeptide binding]; other site 296591014416 active site 296591014417 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 296591014418 substrate binding site [chemical binding]; other site 296591014419 catalytic residue [active] 296591014420 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591014421 NMT1-like family; Region: NMT1_2; cl15260 296591014422 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 296591014423 two-component VirA-like sensor kinase; Provisional; Region: PRK13837 296591014424 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 296591014425 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 296591014426 ATP binding site [chemical binding]; other site 296591014427 Mg2+ binding site [ion binding]; other site 296591014428 G-X-G motif; other site 296591014429 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 296591014430 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 296591014431 dimerization interface [polypeptide binding]; other site 296591014432 PAS fold; Region: PAS_4; pfam08448 296591014433 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 296591014434 putative active site [active] 296591014435 heme pocket [chemical binding]; other site 296591014436 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 296591014437 GAF domain; Region: GAF; cl15785 296591014438 putative diguanylate cyclase; Provisional; Region: PRK09776 296591014439 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 296591014440 ATP binding site [chemical binding]; other site 296591014441 Mg2+ binding site [ion binding]; other site 296591014442 G-X-G motif; other site 296591014443 Response regulator receiver domain; Region: Response_reg; pfam00072 296591014444 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 296591014445 active site 296591014446 phosphorylation site [posttranslational modification] 296591014447 intermolecular recognition site; other site 296591014448 dimerization interface [polypeptide binding]; other site 296591014449 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 296591014450 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 296591014451 dimer interface [polypeptide binding]; other site 296591014452 phosphorylation site [posttranslational modification] 296591014453 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 296591014454 ATP binding site [chemical binding]; other site 296591014455 Mg2+ binding site [ion binding]; other site 296591014456 G-X-G motif; other site 296591014457 Response regulator receiver domain; Region: Response_reg; pfam00072 296591014458 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 296591014459 active site 296591014460 phosphorylation site [posttranslational modification] 296591014461 intermolecular recognition site; other site 296591014462 dimerization interface [polypeptide binding]; other site 296591014463 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 296591014464 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 296591014465 dimer interface [polypeptide binding]; other site 296591014466 phosphorylation site [posttranslational modification] 296591014467 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 296591014468 ATP binding site [chemical binding]; other site 296591014469 Mg2+ binding site [ion binding]; other site 296591014470 G-X-G motif; other site 296591014471 Response regulator receiver domain; Region: Response_reg; pfam00072 296591014472 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 296591014473 active site 296591014474 phosphorylation site [posttranslational modification] 296591014475 intermolecular recognition site; other site 296591014476 dimerization interface [polypeptide binding]; other site 296591014477 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 296591014478 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 296591014479 active site 296591014480 phosphorylation site [posttranslational modification] 296591014481 intermolecular recognition site; other site 296591014482 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591014483 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 296591014484 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 296591014485 transketolase; Reviewed; Region: PRK12753 296591014486 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 296591014487 TPP-binding site [chemical binding]; other site 296591014488 dimer interface [polypeptide binding]; other site 296591014489 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 296591014490 PYR/PP interface [polypeptide binding]; other site 296591014491 dimer interface [polypeptide binding]; other site 296591014492 TPP binding site [chemical binding]; other site 296591014493 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 296591014494 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 296591014495 Substrate binding site; other site 296591014496 metal-binding site 296591014497 proline aminopeptidase P II; Provisional; Region: PRK10879 296591014498 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 296591014499 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 296591014500 active site 296591014501 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 296591014502 RNA/DNA hybrid binding site [nucleotide binding]; other site 296591014503 active site 296591014504 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 296591014505 integron integrase; Region: integrase_gron; TIGR02249 296591014506 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 296591014507 DNA binding site [nucleotide binding] 296591014508 Int/Topo IB signature motif; other site 296591014509 active site 296591014510 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 296591014511 Putative transposase; Region: Y2_Tnp; pfam04986 296591014512 Domain of unknown function DUF302; Region: DUF302; cl01364 296591014513 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 296591014514 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 296591014515 hypothetical protein; Provisional; Region: PRK10396 296591014516 SEC-C motif; Region: SEC-C; pfam02810 296591014517 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 296591014518 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 296591014519 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 296591014520 dimer interface [polypeptide binding]; other site 296591014521 decamer (pentamer of dimers) interface [polypeptide binding]; other site 296591014522 catalytic triad [active] 296591014523 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 296591014524 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 296591014525 active site residue [active] 296591014526 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591014527 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 296591014528 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 296591014529 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 296591014530 dimerization interface [polypeptide binding]; other site 296591014531 putative DNA binding site [nucleotide binding]; other site 296591014532 putative Zn2+ binding site [ion binding]; other site 296591014533 Predicted transporter component [General function prediction only]; Region: COG2391 296591014534 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 296591014535 Predicted transporter component [General function prediction only]; Region: COG2391 296591014536 Sulphur transport; Region: Sulf_transp; cl01018 296591014537 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 296591014538 GAF domain; Region: GAF; cl15785 296591014539 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 296591014540 Walker A motif; other site 296591014541 ATP binding site [chemical binding]; other site 296591014542 Walker B motif; other site 296591014543 arginine finger; other site 296591014544 Helix-turn-helix domains; Region: HTH; cl00088 296591014545 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 296591014546 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 296591014547 active site residue [active] 296591014548 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 296591014549 active site residue [active] 296591014550 OsmC-like protein; Region: OsmC; cl00767 296591014551 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591014552 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591014553 active site 296591014554 Rubredoxin; Region: Rubredoxin; pfam00301 296591014555 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 296591014556 iron binding site [ion binding]; other site 296591014557 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 296591014558 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591014559 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 296591014560 binuclear metal center [ion binding]; other site 296591014561 Rubredoxin [Energy production and conversion]; Region: COG1773 296591014562 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 296591014563 iron binding site [ion binding]; other site 296591014564 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 296591014565 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 296591014566 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591014567 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591014568 Malate dehydrogenase enzyme; Region: Malate_DH; pfam12434 296591014569 malic enzyme; Reviewed; Region: PRK12862 296591014570 Malic enzyme, N-terminal domain; Region: malic; pfam00390 296591014571 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 296591014572 putative NAD(P) binding site [chemical binding]; other site 296591014573 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 296591014574 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 296591014575 active site 296591014576 barstar interaction site; other site 296591014577 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 296591014578 putative RNAase interaction site [polypeptide binding]; other site 296591014579 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591014580 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591014581 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 296591014582 SurA N-terminal domain; Region: SurA_N_3; cl07813 296591014583 PPIC-type PPIASE domain; Region: Rotamase; cl08278 296591014584 PPIC-type PPIASE domain; Region: Rotamase; cl08278 296591014585 organic solvent tolerance protein; Provisional; Region: PRK04423 296591014586 OstA-like protein; Region: OstA; cl00844 296591014587 Organic solvent tolerance protein; Region: OstA_C; pfam04453 296591014588 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591014589 Phosphotransferase enzyme family; Region: APH; pfam01636 296591014590 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 296591014591 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 296591014592 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 296591014593 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591014594 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 296591014595 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 296591014596 metal binding site [ion binding]; metal-binding site 296591014597 putative dimer interface [polypeptide binding]; other site 296591014598 Protein of unknown function DUF72; Region: DUF72; cl00777 296591014599 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 296591014600 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 296591014601 metal-binding site [ion binding] 296591014602 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 296591014603 metal-binding site [ion binding] 296591014604 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 296591014605 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 296591014606 metal-binding site [ion binding] 296591014607 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 296591014608 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 296591014609 motif II; other site 296591014610 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 296591014611 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 296591014612 DNA binding residues [nucleotide binding] 296591014613 dimer interface [polypeptide binding]; other site 296591014614 copper binding site [ion binding]; other site 296591014615 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 296591014616 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 296591014617 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 296591014618 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 296591014619 intersubunit interface [polypeptide binding]; other site 296591014620 active site 296591014621 Zn2+ binding site [ion binding]; other site 296591014622 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 296591014623 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591014624 active site 296591014625 DctM-like transporters; Region: DctM; pfam06808 296591014626 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 296591014627 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 296591014628 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591014629 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591014630 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 296591014631 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591014632 Transcriptional regulators [Transcription]; Region: FadR; COG2186 296591014633 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591014634 DNA-binding site [nucleotide binding]; DNA binding site 296591014635 FCD domain; Region: FCD; cl11656 296591014636 Sulfate transporter family; Region: Sulfate_transp; cl15842 296591014637 Sulfate transporter family; Region: Sulfate_transp; cl15842 296591014638 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 296591014639 Chromate transporter; Region: Chromate_transp; pfam02417 296591014640 Chromate transporter; Region: Chromate_transp; pfam02417 296591014641 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 296591014642 active site residue [active] 296591014643 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 296591014644 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 296591014645 S-adenosylmethionine binding site [chemical binding]; other site 296591014646 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591014647 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 296591014648 Predicted membrane protein [Function unknown]; Region: COG2119 296591014649 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 296591014650 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 296591014651 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 296591014652 RNA polymerase sigma factor; Provisional; Region: PRK12520 296591014653 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 296591014654 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 296591014655 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 296591014656 RNA/DNA binding site [nucleotide binding]; other site 296591014657 RRM dimerization site [polypeptide binding]; other site 296591014658 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 296591014659 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591014660 NAD(P) binding site [chemical binding]; other site 296591014661 active site 296591014662 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 296591014663 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 296591014664 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 296591014665 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 296591014666 active site 296591014667 motif I; other site 296591014668 motif II; other site 296591014669 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 296591014670 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 296591014671 putative active site [active] 296591014672 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 296591014673 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 296591014674 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 296591014675 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 296591014676 putative active site [active] 296591014677 putative NTP binding site [chemical binding]; other site 296591014678 putative nucleic acid binding site [nucleotide binding]; other site 296591014679 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 296591014680 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 296591014681 active site 296591014682 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 296591014683 putative cation:proton antiport protein; Provisional; Region: PRK10669 296591014684 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591014685 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 296591014686 catalytic core [active] 296591014687 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 296591014688 ligand binding site [chemical binding]; other site 296591014689 flexible hinge region; other site 296591014690 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 296591014691 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 296591014692 trmE is a tRNA modification GTPase; Region: trmE; cd04164 296591014693 G1 box; other site 296591014694 GTP/Mg2+ binding site [chemical binding]; other site 296591014695 Switch I region; other site 296591014696 G2 box; other site 296591014697 Switch II region; other site 296591014698 G3 box; other site 296591014699 G4 box; other site 296591014700 G5 box; other site 296591014701 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 296591014702 membrane protein insertase, YidC/Oxa1 family, N-terminal domain; Region: yidC_nterm; TIGR03593 296591014703 membrane protein insertase; Provisional; Region: PRK01318 296591014704 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 296591014705 Haemolytic domain; Region: Haemolytic; cl00506 296591014706 Ribonuclease P; Region: Ribonuclease_P; cl00457 296591014707 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 296591014708 Domain of unknown function (DUF1768); Region: DUF1768; cl01271 296591014709 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591014710 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591014711 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591014712 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591014713 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 296591014714 DNA binding residues [nucleotide binding] 296591014715 dimerization interface [polypeptide binding]; other site 296591014716 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 296591014717 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 296591014718 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 296591014719 homodimer interface [polypeptide binding]; other site 296591014720 active site 296591014721 TDP-binding site; other site 296591014722 acceptor substrate-binding pocket; other site 296591014723 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 296591014724 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 296591014725 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 296591014726 putative ADP-binding pocket [chemical binding]; other site 296591014727 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 296591014728 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 296591014729 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 296591014730 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 296591014731 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 296591014732 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 296591014733 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 296591014734 Walker A/P-loop; other site 296591014735 ATP binding site [chemical binding]; other site 296591014736 Q-loop/lid; other site 296591014737 ABC transporter signature motif; other site 296591014738 Walker B; other site 296591014739 D-loop; other site 296591014740 H-loop/switch region; other site 296591014741 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 296591014742 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 296591014743 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 296591014744 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 296591014745 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591014746 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 296591014747 Vi polysaccharide biosynthesis protein TviE; Provisional; Region: PRK15179 296591014748 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 296591014749 GSCFA family; Region: GSCFA; pfam08885 296591014750 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 296591014751 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 296591014752 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 296591014753 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 296591014754 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 296591014755 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 296591014756 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 296591014757 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 296591014758 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591014759 Walker A/P-loop; other site 296591014760 ATP binding site [chemical binding]; other site 296591014761 Q-loop/lid; other site 296591014762 ABC transporter signature motif; other site 296591014763 Walker B; other site 296591014764 D-loop; other site 296591014765 H-loop/switch region; other site 296591014766 ABC-2 type transporter; Region: ABC2_membrane; cl11417 296591014767 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 296591014768 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 296591014769 Substrate binding site; other site 296591014770 Cupin domain; Region: Cupin_2; cl09118 296591014771 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 296591014772 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 296591014773 Transposase domain (DUF772); Region: DUF772; cl15789 296591014774 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 296591014775 catalytic residues [active] 296591014776 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 296591014777 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 296591014778 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 296591014779 IHF - DNA interface [nucleotide binding]; other site 296591014780 IHF dimer interface [polypeptide binding]; other site 296591014781 PRTRC system protein D; Region: PRTRC_D; TIGR03739 296591014782 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 296591014783 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 296591014784 DNA binding site [nucleotide binding] 296591014785 Int/Topo IB signature motif; other site 296591014786 active site 296591014787 catalytic residues [active] 296591014788 Transposase domain (DUF772); Region: DUF772; cl15789 296591014789 LabA_like proteins; Region: LabA_like/DUF88; cl10034 296591014790 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 296591014791 PLD-like domain; Region: PLDc_2; pfam13091 296591014792 putative active site [active] 296591014793 catalytic site [active] 296591014794 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 296591014795 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 296591014796 Domain of unknown function (DUF4297); Region: DUF4297; pfam14130 296591014797 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 296591014798 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 296591014799 Catalytic site [active] 296591014800 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 296591014801 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 296591014802 active site 296591014803 DNA binding site [nucleotide binding] 296591014804 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 296591014805 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 296591014806 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 296591014807 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 296591014808 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 296591014809 Initiator Replication protein; Region: Rep_3; cl03080 296591014810 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 296591014811 non-specific DNA binding site [nucleotide binding]; other site 296591014812 salt bridge; other site 296591014813 sequence-specific DNA binding site [nucleotide binding]; other site 296591014814 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591014815 Methyltransferase domain; Region: Methyltransf_27; pfam13708 296591014816 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 296591014817 response regulator FixJ; Provisional; Region: fixJ; PRK09390 296591014818 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 296591014819 dimer interface [polypeptide binding]; other site 296591014820 phosphorylation site [posttranslational modification] 296591014821 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 296591014822 ATP binding site [chemical binding]; other site 296591014823 Mg2+ binding site [ion binding]; other site 296591014824 G-X-G motif; other site 296591014825 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 296591014826 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 296591014827 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 296591014828 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 296591014829 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 296591014830 RES domain; Region: RES; cl02411 296591014831 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 296591014832 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591014833 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591014834 Restriction endonuclease; Region: Mrr_cat; cl00516 296591014835 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591014836 substrate binding site [chemical binding]; other site 296591014837 activation loop (A-loop); other site 296591014838 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591014839 active site 296591014840 substrate binding site [chemical binding]; other site 296591014841 ATP binding site [chemical binding]; other site 296591014842 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591014843 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591014844 Family description; Region: UvrD_C_2; cl15862 296591014845 TIGR02687 family protein; Region: TIGR02687 296591014846 PglZ domain; Region: PglZ; pfam08665 296591014847 conserved hypothetical protein; Region: Lon_rel_chp; TIGR02653 296591014848 Putative ATP-dependent Lon protease; Region: Lon_2; cl11979 296591014849 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 296591014850 PHP domain; Region: PHP; pfam02811 296591014851 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 296591014852 AAA domain; Region: AAA_21; pfam13304 296591014853 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 296591014854 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 296591014855 non-specific DNA binding site [nucleotide binding]; other site 296591014856 salt bridge; other site 296591014857 sequence-specific DNA binding site [nucleotide binding]; other site 296591014858 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 296591014859 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 296591014860 non-specific DNA binding site [nucleotide binding]; other site 296591014861 salt bridge; other site 296591014862 sequence-specific DNA binding site [nucleotide binding]; other site 296591014863 Flagellin N-methylase; Region: FliB; cl00497 296591014864 Phage integrase protein; Region: DUF3701; pfam12482 296591014865 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 296591014866 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 296591014867 DNA binding site [nucleotide binding] 296591014868 Int/Topo IB signature motif; other site 296591014869 active site 296591014870 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 296591014871 Active Sites [active] 296591014872 ParA-like protein; Provisional; Region: PHA02518 296591014873 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 296591014874 P-loop; other site 296591014875 Magnesium ion binding site [ion binding]; other site 296591014876 ParB-like partition proteins; Region: parB_part; TIGR00180 296591014877 ParB-like nuclease domain; Region: ParBc; cl02129 296591014878 TrfA protein; Region: TrfA; pfam07042 296591014879 Replication initiator protein A; Region: RPA; cl02339 296591014880 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 296591014881 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 296591014882 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 296591014883 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 296591014884 ParB-like nuclease domain; Region: ParBc; cl02129 296591014885 PRTRC system protein E; Region: PRTRC_E; TIGR03741 296591014886 Prokaryotic Ubiquitin; Region: Prok_Ub; cl14020 296591014887 ERCC4 domain; Region: ERCC4; cl10594 296591014888 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 296591014889 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 296591014890 PRTRC system protein F; Region: PRTRC_F; TIGR03742 296591014891 Alpha-helical domain 2; Region: alpha-hel2; pfam14456 296591014892 Prokaryotic E2 family D; Region: Prok-E2_D; cl14019 296591014893 Domain of unknown function (DUF2016); Region: DUF2016; pfam09436 296591014894 PRTRC system protein A; Region: PRTRC_A; TIGR03735 296591014895 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 296591014896 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 296591014897 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 296591014898 ATP binding site [chemical binding]; other site 296591014899 substrate interface [chemical binding]; other site 296591014900 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 296591014901 HerA helicase [Replication, recombination, and repair]; Region: COG0433 296591014902 Domain of unknown function DUF87; Region: DUF87; pfam01935 296591014903 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 296591014904 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591014905 Family description; Region: UvrD_C_2; cl15862 296591014906 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591014907 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 296591014908 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 296591014909 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 296591014910 non-specific DNA binding site [nucleotide binding]; other site 296591014911 salt bridge; other site 296591014912 sequence-specific DNA binding site [nucleotide binding]; other site 296591014913 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 296591014914 non-specific DNA binding site [nucleotide binding]; other site 296591014915 salt bridge; other site 296591014916 sequence-specific DNA binding site [nucleotide binding]; other site 296591014917 Transposase domain (DUF772); Region: DUF772; cl15789 296591014918 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 296591014919 Transposase domain (DUF772); Region: DUF772; cl15789 296591014920 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 296591014921 substrate binding site [chemical binding]; other site 296591014922 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 296591014923 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 296591014924 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591014925 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591014926 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591014927 DctM-like transporters; Region: DctM; pfam06808 296591014928 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 296591014929 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 296591014930 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591014931 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591014932 DNA-binding site [nucleotide binding]; DNA binding site 296591014933 FCD domain; Region: FCD; cl11656 296591014934 transcriptional activator TtdR; Provisional; Region: PRK09801 296591014935 Helix-turn-helix domains; Region: HTH; cl00088 296591014936 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 296591014937 putative effector binding pocket; other site 296591014938 dimerization interface [polypeptide binding]; other site 296591014939 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591014940 NMT1-like family; Region: NMT1_2; cl15260 296591014941 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591014942 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591014943 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 296591014944 FAD binding domain; Region: FAD_binding_4; pfam01565 296591014945 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 296591014946 Helix-turn-helix domains; Region: HTH; cl00088 296591014947 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 296591014948 dimerization interface [polypeptide binding]; other site 296591014949 Transcriptional regulators [Transcription]; Region: PurR; COG1609 296591014950 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 296591014951 DNA binding site [nucleotide binding] 296591014952 domain linker motif; other site 296591014953 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 296591014954 dimerization interface [polypeptide binding]; other site 296591014955 ligand binding site [chemical binding]; other site 296591014956 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 296591014957 Dehydratase family; Region: ILVD_EDD; cl00340 296591014958 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591014959 NMT1-like family; Region: NMT1_2; cl15260 296591014960 Transcriptional regulators [Transcription]; Region: FadR; COG2186 296591014961 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591014962 DNA-binding site [nucleotide binding]; DNA binding site 296591014963 FCD domain; Region: FCD; cl11656 296591014964 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 296591014965 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591014966 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591014967 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 296591014968 tetramerization interface [polypeptide binding]; other site 296591014969 NAD(P) binding site [chemical binding]; other site 296591014970 catalytic residues [active] 296591014971 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 296591014972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591014973 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 296591014974 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591014975 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 296591014976 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 296591014977 active site pocket [active] 296591014978 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591014979 NMT1-like family; Region: NMT1_2; cl15260 296591014980 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 296591014981 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 296591014982 putative active site pocket [active] 296591014983 metal binding site [ion binding]; metal-binding site 296591014984 Protein of unknown function DUF262; Region: DUF262; cl14890 296591014985 putative transposase OrfB; Reviewed; Region: PHA02517 296591014986 HTH-like domain; Region: HTH_21; pfam13276 296591014987 Integrase core domain; Region: rve; cl01316 296591014988 Integrase core domain; Region: rve_3; cl15866 296591014989 Helix-turn-helix domains; Region: HTH; cl00088 296591014990 Flavin Reductases; Region: FlaRed; cl00801 296591014991 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591014992 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 296591014993 putative ligand binding site [chemical binding]; other site 296591014994 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 296591014995 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 296591014996 TM-ABC transporter signature motif; other site 296591014997 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 296591014998 TM-ABC transporter signature motif; other site 296591014999 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591015000 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 296591015001 Walker A/P-loop; other site 296591015002 ATP binding site [chemical binding]; other site 296591015003 Q-loop/lid; other site 296591015004 ABC transporter signature motif; other site 296591015005 Walker B; other site 296591015006 D-loop; other site 296591015007 H-loop/switch region; other site 296591015008 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591015009 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 296591015010 Walker A/P-loop; other site 296591015011 ATP binding site [chemical binding]; other site 296591015012 Q-loop/lid; other site 296591015013 ABC transporter signature motif; other site 296591015014 Walker B; other site 296591015015 D-loop; other site 296591015016 H-loop/switch region; other site 296591015017 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591015018 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 296591015019 NAD binding site [chemical binding]; other site 296591015020 catalytic residues [active] 296591015021 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 296591015022 homotrimer interaction site [polypeptide binding]; other site 296591015023 putative active site [active] 296591015024 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 296591015025 acetaldehyde dehydrogenase; Validated; Region: PRK08300 296591015026 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591015027 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 296591015028 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 296591015029 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 296591015030 active site 296591015031 catalytic residues [active] 296591015032 metal binding site [ion binding]; metal-binding site 296591015033 DmpG-like communication domain; Region: DmpG_comm; pfam07836 296591015034 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 296591015035 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 296591015036 homotrimer interaction site [polypeptide binding]; other site 296591015037 putative active site [active] 296591015038 Cupin domain; Region: Cupin_2; cl09118 296591015039 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 296591015040 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 296591015041 Helix-turn-helix domains; Region: HTH; cl00088 296591015042 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 296591015043 dimerization interface [polypeptide binding]; other site 296591015044 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 296591015045 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 296591015046 putative NAD(P) binding site [chemical binding]; other site 296591015047 Helix-turn-helix domains; Region: HTH; cl00088 296591015048 Tektin family; Region: Tektin; pfam03148 296591015049 putative transposase OrfB; Reviewed; Region: PHA02517 296591015050 HTH-like domain; Region: HTH_21; pfam13276 296591015051 Integrase core domain; Region: rve; cl01316 296591015052 Integrase core domain; Region: rve_3; cl15866 296591015053 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 296591015054 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 296591015055 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 296591015056 catalytic triad [active] 296591015057 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591015058 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 296591015059 Walker A/P-loop; other site 296591015060 ATP binding site [chemical binding]; other site 296591015061 Q-loop/lid; other site 296591015062 ABC transporter signature motif; other site 296591015063 Walker B; other site 296591015064 D-loop; other site 296591015065 H-loop/switch region; other site 296591015066 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591015067 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 296591015068 Walker A/P-loop; other site 296591015069 ATP binding site [chemical binding]; other site 296591015070 Q-loop/lid; other site 296591015071 ABC transporter signature motif; other site 296591015072 Walker B; other site 296591015073 D-loop; other site 296591015074 H-loop/switch region; other site 296591015075 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 296591015076 TM-ABC transporter signature motif; other site 296591015077 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 296591015078 TM-ABC transporter signature motif; other site 296591015079 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591015080 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 296591015081 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 296591015082 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591015083 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 296591015084 catalytic loop [active] 296591015085 iron binding site [ion binding]; other site 296591015086 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 296591015087 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 296591015088 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 296591015089 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 296591015090 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 296591015091 alpha subunit interface [polypeptide binding]; other site 296591015092 active site 296591015093 substrate binding site [chemical binding]; other site 296591015094 Fe binding site [ion binding]; other site 296591015095 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591015096 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591015097 DNA-binding site [nucleotide binding]; DNA binding site 296591015098 FCD domain; Region: FCD; cl11656 296591015099 Domain of unknown function (DUF955); Region: DUF955; cl01076 296591015100 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 296591015101 non-specific DNA binding site [nucleotide binding]; other site 296591015102 salt bridge; other site 296591015103 sequence-specific DNA binding site [nucleotide binding]; other site 296591015104 endopeptidase Clp ATP-binding regulatory subunit (clpX); Region: clpX; TIGR00382 296591015105 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 296591015106 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 296591015107 Walker A motif; other site 296591015108 ATP binding site [chemical binding]; other site 296591015109 Walker B motif; other site 296591015110 arginine finger; other site 296591015111 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 296591015112 active site 296591015113 NTP binding site [chemical binding]; other site 296591015114 metal binding triad [ion binding]; metal-binding site 296591015115 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 296591015116 putative uracil binding site [chemical binding]; other site 296591015117 putative active site [active] 296591015118 Protein of unknown function, DUF488; Region: DUF488; cl01246 296591015119 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 296591015120 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591015121 DNA-binding site [nucleotide binding]; DNA binding site 296591015122 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 296591015123 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591015124 homodimer interface [polypeptide binding]; other site 296591015125 catalytic residue [active] 296591015126 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 296591015127 Cupin domain; Region: Cupin_2; cl09118 296591015128 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 296591015129 dimer interface [polypeptide binding]; other site 296591015130 FMN binding site [chemical binding]; other site 296591015131 Cupin domain; Region: Cupin_2; cl09118 296591015132 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 296591015133 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 296591015134 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 296591015135 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 296591015136 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 296591015137 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 296591015138 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 296591015139 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 296591015140 C-terminal domain interface [polypeptide binding]; other site 296591015141 GSH binding site (G-site) [chemical binding]; other site 296591015142 dimer interface [polypeptide binding]; other site 296591015143 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 296591015144 dimer interface [polypeptide binding]; other site 296591015145 N-terminal domain interface [polypeptide binding]; other site 296591015146 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 296591015147 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 296591015148 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 296591015149 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591015150 Coenzyme A binding pocket [chemical binding]; other site 296591015151 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 296591015152 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 296591015153 C-terminal domain interface [polypeptide binding]; other site 296591015154 GSH binding site (G-site) [chemical binding]; other site 296591015155 dimer interface [polypeptide binding]; other site 296591015156 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 296591015157 N-terminal domain interface [polypeptide binding]; other site 296591015158 putative dimer interface [polypeptide binding]; other site 296591015159 active site 296591015160 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 296591015161 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 296591015162 C-terminal domain interface [polypeptide binding]; other site 296591015163 GSH binding site (G-site) [chemical binding]; other site 296591015164 dimer interface [polypeptide binding]; other site 296591015165 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 296591015166 N-terminal domain interface [polypeptide binding]; other site 296591015167 dimer interface [polypeptide binding]; other site 296591015168 substrate binding pocket (H-site) [chemical binding]; other site 296591015169 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 296591015170 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 296591015171 active site 296591015172 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 296591015173 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591015174 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 296591015175 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 296591015176 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591015177 Helix-turn-helix domains; Region: HTH; cl00088 296591015178 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 296591015179 propionate catabolism operon regulatory protein PrpR; Region: propionate_PrpR; TIGR02329 296591015180 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 296591015181 Walker A motif; other site 296591015182 ATP binding site [chemical binding]; other site 296591015183 Walker B motif; other site 296591015184 arginine finger; other site 296591015185 Helix-turn-helix domains; Region: HTH; cl00088 296591015186 Protein of unknown function, DUF485; Region: DUF485; cl01231 296591015187 Sodium:solute symporter family; Region: SSF; cl00456 296591015188 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 296591015189 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 296591015190 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 296591015191 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 296591015192 active site 296591015193 motif I; other site 296591015194 motif II; other site 296591015195 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 296591015196 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; cl00089 296591015197 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 296591015198 active site 296591015199 substrate binding site [chemical binding]; other site 296591015200 Mg2+ binding site [ion binding]; other site 296591015201 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 296591015202 Integrase core domain; Region: rve; cl01316 296591015203 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 296591015204 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 296591015205 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 296591015206 Walker A motif; other site 296591015207 ATP binding site [chemical binding]; other site 296591015208 Walker B motif; other site 296591015209 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 296591015210 Helix-turn-helix domains; Region: HTH; cl00088 296591015211 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 296591015212 putative dimerization interface [polypeptide binding]; other site 296591015213 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 296591015214 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 296591015215 active sites [active] 296591015216 tetramer interface [polypeptide binding]; other site 296591015217 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591015218 NMT1-like family; Region: NMT1_2; cl15260 296591015219 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 296591015220 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591015221 NMT1-like family; Region: NMT1_2; cl15260 296591015222 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 296591015223 Helix-turn-helix domains; Region: HTH; cl00088 296591015224 putative transposase OrfB; Reviewed; Region: PHA02517 296591015225 HTH-like domain; Region: HTH_21; pfam13276 296591015226 Integrase core domain; Region: rve; cl01316 296591015227 Integrase core domain; Region: rve_3; cl15866 296591015228 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 296591015229 DNA binding site [nucleotide binding] 296591015230 Int/Topo IB signature motif; other site 296591015231 active site 296591015232 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 296591015233 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 296591015234 active site 296591015235 dimer interface [polypeptide binding]; other site 296591015236 effector binding site; other site 296591015237 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 296591015238 RES domain; Region: RES; cl02411 296591015239 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 296591015240 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 296591015241 metal ion-dependent adhesion site (MIDAS); other site 296591015242 CHC2 zinc finger; Region: zf-CHC2; cl15369 296591015243 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 296591015244 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 296591015245 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 296591015246 Putative helicase; Region: TraI_2; pfam07514 296591015247 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 296591015248 Domain of unknown function DUF87; Region: DUF87; pfam01935 296591015249 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 296591015250 Domain of unknown function (DUF4400); Region: DUF4400; cl14023 296591015251 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 296591015252 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 296591015253 ATP binding site [chemical binding]; other site 296591015254 Walker A motif; other site 296591015255 hexamer interface [polypeptide binding]; other site 296591015256 Walker B motif; other site 296591015257 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 296591015258 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 296591015259 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 296591015260 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 296591015261 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 296591015262 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 296591015263 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 296591015264 Walker A motif; other site 296591015265 ATP binding site [chemical binding]; other site 296591015266 Walker B motif; other site 296591015267 arginine finger; other site 296591015268 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 296591015269 Walker A motif; other site 296591015270 ATP binding site [chemical binding]; other site 296591015271 Walker B motif; other site 296591015272 arginine finger; other site 296591015273 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 296591015274 N-acetyl-D-glucosamine binding site [chemical binding]; other site 296591015275 catalytic residue [active] 296591015276 VirB8 protein; Region: VirB8; cl01500 296591015277 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 296591015278 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 296591015279 VirB7 interaction site; other site 296591015280 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 296591015281 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 296591015282 VirB7 interaction site; other site 296591015283 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 296591015284 ligand binding site [chemical binding]; other site 296591015285 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 296591015286 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 296591015287 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 296591015288 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 296591015289 Pilin accessory protein (PilO); Region: PAP_PilO; pfam06864 296591015290 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 296591015291 Type II/IV secretion system protein; Region: T2SE; pfam00437 296591015292 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591015293 Walker A motif; other site 296591015294 ATP binding site [chemical binding]; other site 296591015295 Walker B motif; other site 296591015296 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 296591015297 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 296591015298 PilS N terminal; Region: PilS; pfam08805 296591015299 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591015300 Walker A motif; other site 296591015301 ATP binding site [chemical binding]; other site 296591015302 Walker B motif; other site 296591015303 PilM; Region: PilM; pfam07419 296591015304 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 296591015305 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591015306 Walker A motif; other site 296591015307 ATP binding site [chemical binding]; other site 296591015308 Walker B motif; other site 296591015309 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 296591015310 Transcriptional regulator [Transcription]; Region: IclR; COG1414 296591015311 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591015312 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 296591015313 substrate binding site [chemical binding]; other site 296591015314 oxyanion hole (OAH) forming residues; other site 296591015315 trimer interface [polypeptide binding]; other site 296591015316 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 296591015317 DUF35 OB-fold domain; Region: DUF35; pfam01796 296591015318 thiolase; Provisional; Region: PRK06158 296591015319 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 296591015320 active site 296591015321 cyclohexanecarboxylate-CoA ligase; Reviewed; Region: PRK13295 296591015322 AMP-binding enzyme; Region: AMP-binding; cl15778 296591015323 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591015324 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 296591015325 active site 2 [active] 296591015326 active site 1 [active] 296591015327 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 296591015328 AMP-binding enzyme; Region: AMP-binding; cl15778 296591015329 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591015330 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591015331 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591015332 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591015333 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 296591015334 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591015335 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591015336 NAD(P) binding site [chemical binding]; other site 296591015337 active site 296591015338 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 296591015339 CoenzymeA binding site [chemical binding]; other site 296591015340 subunit interaction site [polypeptide binding]; other site 296591015341 PHB binding site; other site 296591015342 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 296591015343 CoenzymeA binding site [chemical binding]; other site 296591015344 subunit interaction site [polypeptide binding]; other site 296591015345 PHB binding site; other site 296591015346 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 296591015347 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 296591015348 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591015349 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591015350 active site 296591015351 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 296591015352 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 296591015353 ATP-grasp domain; Region: ATP-grasp_4; cl03087 296591015354 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 296591015355 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 296591015356 carboxyltransferase (CT) interaction site; other site 296591015357 biotinylation site [posttranslational modification]; other site 296591015358 enoyl-CoA hydratase; Provisional; Region: PRK07468 296591015359 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 296591015360 substrate binding site [chemical binding]; other site 296591015361 oxyanion hole (OAH) forming residues; other site 296591015362 trimer interface [polypeptide binding]; other site 296591015363 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 296591015364 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 296591015365 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 296591015366 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 296591015367 active site 296591015368 catalytic residues [active] 296591015369 metal binding site [ion binding]; metal-binding site 296591015370 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 296591015371 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 296591015372 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 296591015373 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 296591015374 carboxyltransferase (CT) interaction site; other site 296591015375 biotinylation site [posttranslational modification]; other site 296591015376 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 296591015377 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 296591015378 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 296591015379 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 296591015380 substrate binding site [chemical binding]; other site 296591015381 oxyanion hole (OAH) forming residues; other site 296591015382 trimer interface [polypeptide binding]; other site 296591015383 cyclohexanecarboxyl-CoA dehydrogenase; Region: cyc_hxne_CoA_dh; TIGR03207 296591015384 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591015385 active site 296591015386 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 296591015387 active site 296591015388 FMN binding site [chemical binding]; other site 296591015389 2,4-decadienoyl-CoA binding site; other site 296591015390 catalytic residue [active] 296591015391 4Fe-4S cluster binding site [ion binding]; other site 296591015392 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 296591015393 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591015394 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 296591015395 active site 296591015396 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 296591015397 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 296591015398 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 296591015399 active site 296591015400 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 296591015401 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591015402 active site 296591015403 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 296591015404 DUF35 OB-fold domain; Region: DUF35; pfam01796 296591015405 thiolase; Provisional; Region: PRK06158 296591015406 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 296591015407 active site 296591015408 Porin subfamily; Region: Porin_2; pfam02530 296591015409 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 296591015410 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591015411 NAD(P) binding site [chemical binding]; other site 296591015412 active site 296591015413 enoyl-CoA hydratase; Region: PLN02864 296591015414 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 296591015415 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 296591015416 dimer interaction site [polypeptide binding]; other site 296591015417 substrate-binding tunnel; other site 296591015418 active site 296591015419 catalytic site [active] 296591015420 substrate binding site [chemical binding]; other site 296591015421 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 296591015422 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 296591015423 substrate binding site [chemical binding]; other site 296591015424 oxyanion hole (OAH) forming residues; other site 296591015425 trimer interface [polypeptide binding]; other site 296591015426 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591015427 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 296591015428 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 296591015429 active site 296591015430 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591015431 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591015432 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591015433 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 296591015434 Walker A/P-loop; other site 296591015435 ATP binding site [chemical binding]; other site 296591015436 Q-loop/lid; other site 296591015437 ABC transporter signature motif; other site 296591015438 Walker B; other site 296591015439 D-loop; other site 296591015440 H-loop/switch region; other site 296591015441 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 296591015442 AMP-binding enzyme; Region: AMP-binding; cl15778 296591015443 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 296591015444 TM-ABC transporter signature motif; other site 296591015445 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 296591015446 TM-ABC transporter signature motif; other site 296591015447 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591015448 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 296591015449 Walker A/P-loop; other site 296591015450 ATP binding site [chemical binding]; other site 296591015451 Q-loop/lid; other site 296591015452 ABC transporter signature motif; other site 296591015453 Walker B; other site 296591015454 D-loop; other site 296591015455 H-loop/switch region; other site 296591015456 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591015457 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 296591015458 putative ligand binding site [chemical binding]; other site 296591015459 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 296591015460 classical (c) SDRs; Region: SDR_c; cd05233 296591015461 NAD(P) binding site [chemical binding]; other site 296591015462 active site 296591015463 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591015464 Helix-turn-helix domains; Region: HTH; cl00088 296591015465 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 296591015466 putative active site [active] 296591015467 putative catalytic site [active] 296591015468 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 296591015469 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 296591015470 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 296591015471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591015472 short chain dehydrogenase; Provisional; Region: PRK07677 296591015473 NAD(P) binding site [chemical binding]; other site 296591015474 active site 296591015475 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591015476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591015477 NAD(P) binding site [chemical binding]; other site 296591015478 active site 296591015479 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 296591015480 CoenzymeA binding site [chemical binding]; other site 296591015481 subunit interaction site [polypeptide binding]; other site 296591015482 PHB binding site; other site 296591015483 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 296591015484 catalytic loop [active] 296591015485 iron binding site [ion binding]; other site 296591015486 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 296591015487 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591015488 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 296591015489 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 296591015490 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 296591015491 Trp docking motif [polypeptide binding]; other site 296591015492 cytochrome domain interface [polypeptide binding]; other site 296591015493 active site 296591015494 Cytochrome c; Region: Cytochrom_C; cl11414 296591015495 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 296591015496 Pseudomonas putida Aldehyde dehydrogenase AlkH-like; Region: ALDH_AlkH-like; cd07134 296591015497 NAD(P) binding site [chemical binding]; other site 296591015498 catalytic residues [active] 296591015499 choline dehydrogenase; Validated; Region: PRK02106 296591015500 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591015501 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 296591015502 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 296591015503 AMP-binding enzyme; Region: AMP-binding; cl15778 296591015504 transcriptional regulator MalT; Provisional; Region: PRK04841 296591015505 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 296591015506 DNA binding residues [nucleotide binding] 296591015507 dimerization interface [polypeptide binding]; other site 296591015508 DDE domain; Region: DDE_Tnp_IS240; pfam13610 296591015509 Integrase core domain; Region: rve; cl01316 296591015510 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 296591015511 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 296591015512 Domain of unknown function (DUF4402); Region: DUF4402; pfam14352 296591015513 Domain of unknown function (DUF4402); Region: DUF4402; pfam14352 296591015514 DDE domain; Region: DDE_Tnp_IS240; pfam13610 296591015515 Integrase core domain; Region: rve; cl01316 296591015516 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 296591015517 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 296591015518 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 296591015519 Integrase core domain; Region: rve; cl01316 296591015520 transposase/IS protein; Provisional; Region: PRK09183 296591015521 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 296591015522 Walker A motif; other site 296591015523 ATP binding site [chemical binding]; other site 296591015524 Walker B motif; other site 296591015525 arginine finger; other site 296591015526 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 296591015527 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 296591015528 active site 296591015529 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 296591015530 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 296591015531 active site 296591015532 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 296591015533 Phosphopantetheine attachment site; Region: PP-binding; cl09936 296591015534 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 296591015535 Fatty acid desaturase; Region: FA_desaturase; pfam00487 296591015536 Di-iron ligands [ion binding]; other site 296591015537 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 296591015538 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 296591015539 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 296591015540 S-adenosylmethionine binding site [chemical binding]; other site 296591015541 Phosphopantetheine attachment site; Region: PP-binding; cl09936 296591015542 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 296591015543 Fatty acid desaturase; Region: FA_desaturase; pfam00487 296591015544 Di-iron ligands [ion binding]; other site 296591015545 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 296591015546 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 296591015547 Transposase; Region: DDE_Tnp_ISL3; pfam01610 296591015548 acyl-CoA synthetase; Validated; Region: PRK05850 296591015549 AMP-binding enzyme; Region: AMP-binding; cl15778 296591015550 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 296591015551 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 296591015552 homoserine dehydrogenase; Provisional; Region: PRK06349 296591015553 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591015554 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 296591015555 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 296591015556 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 296591015557 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 296591015558 Active Sites [active] 296591015559 PRTRC system protein E; Region: PRTRC_E; TIGR03741 296591015560 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 296591015561 ParB-like nuclease domain; Region: ParBc; cl02129 296591015562 Methyltransferase domain; Region: Methyltransf_27; pfam13708 296591015563 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 296591015564 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 296591015565 Walker A motif; other site 296591015566 ATP binding site [chemical binding]; other site 296591015567 Walker B motif; other site 296591015568 Integrase core domain; Region: rve; cl01316 296591015569 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591015570 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 296591015571 Family description; Region: UvrD_C_2; cl15862 296591015572 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 296591015573 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 296591015574 active site 296591015575 interdomain interaction site; other site 296591015576 putative metal-binding site [ion binding]; other site 296591015577 nucleotide binding site [chemical binding]; other site 296591015578 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 296591015579 active site 296591015580 Protein of unknown function DUF86; Region: DUF86; cl01031 296591015581 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 296591015582 active site 296591015583 NTP binding site [chemical binding]; other site 296591015584 metal binding triad [ion binding]; metal-binding site 296591015585 antibiotic binding site [chemical binding]; other site 296591015586 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 296591015587 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 296591015588 Peptidase M15; Region: Peptidase_M15_3; cl01194 296591015589 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591015590 Walker A/P-loop; other site 296591015591 ATP binding site [chemical binding]; other site 296591015592 endonuclease subunit; Provisional; Region: 46; PHA02562 296591015593 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591015594 ABC transporter signature motif; other site 296591015595 Walker B; other site 296591015596 D-loop; other site 296591015597 H-loop/switch region; other site 296591015598 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 296591015599 TIR domain; Region: TIR_2; cl15770 296591015600 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 296591015601 aspartate carbamoyltransferase; Provisional; Region: PRK11891 296591015602 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 296591015603 non-specific DNA binding site [nucleotide binding]; other site 296591015604 salt bridge; other site 296591015605 sequence-specific DNA binding site [nucleotide binding]; other site 296591015606 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 296591015607 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 296591015608 DNA binding site [nucleotide binding] 296591015609 Int/Topo IB signature motif; other site 296591015610 active site 296591015611 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591015612 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 296591015613 ligand binding site [chemical binding]; other site 296591015614 flexible hinge region; other site 296591015615 Helix-turn-helix domains; Region: HTH; cl00088 296591015616 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591015617 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 296591015618 active site 296591015619 Int/Topo IB signature motif; other site 296591015620 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 296591015621 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 296591015622 putative active site [active] 296591015623 putative NTP binding site [chemical binding]; other site 296591015624 putative nucleic acid binding site [nucleotide binding]; other site 296591015625 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 296591015626 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 296591015627 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 296591015628 putative active site [active] 296591015629 putative NTP binding site [chemical binding]; other site 296591015630 putative nucleic acid binding site [nucleotide binding]; other site 296591015631 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 296591015632 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 296591015633 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 296591015634 Probable transposase; Region: OrfB_IS605; pfam01385 296591015635 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 296591015636 RRXRR protein; Region: RRXRR; pfam14239 296591015637 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 296591015638 active site 296591015639 Protein of unknown function (DUF3268); Region: DUF3268; pfam11672 296591015640 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 296591015641 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 296591015642 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 296591015643 active site 296591015644 substrate binding site [chemical binding]; other site 296591015645 Mg2+ binding site [ion binding]; other site 296591015646 HipA N-terminal domain; Region: Couple_hipA; cl11853 296591015647 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 296591015648 HipA-like N-terminal domain; Region: HipA_N; pfam07805 296591015649 HipA-like C-terminal domain; Region: HipA_C; pfam07804 296591015650 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 296591015651 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 296591015652 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 296591015653 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 296591015654 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 296591015655 Active Sites [active] 296591015656 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 296591015657 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 296591015658 PRTRC system protein D; Region: PRTRC_D; TIGR03739 296591015659 StbA protein; Region: StbA; pfam06406 296591015660 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 296591015661 N-acetyl-D-glucosamine binding site [chemical binding]; other site 296591015662 catalytic residue [active] 296591015663 GtrA-like protein; Region: GtrA; cl00971 296591015664 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 296591015665 Ligand binding site; other site 296591015666 Putative Catalytic site; other site 296591015667 DXD motif; other site 296591015668 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 296591015669 S-adenosylmethionine binding site [chemical binding]; other site 296591015670 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 296591015671 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 296591015672 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591015673 Walker A motif; other site 296591015674 ATP binding site [chemical binding]; other site 296591015675 Walker B motif; other site 296591015676 PilM; Region: PilM; pfam07419 296591015677 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591015678 Walker A motif; other site 296591015679 ATP binding site [chemical binding]; other site 296591015680 Walker B motif; other site 296591015681 PilS N terminal; Region: PilS; pfam08805 296591015682 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 296591015683 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 296591015684 Type II/IV secretion system protein; Region: T2SE; pfam00437 296591015685 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591015686 Walker A motif; other site 296591015687 ATP binding site [chemical binding]; other site 296591015688 Walker B motif; other site 296591015689 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 296591015690 Pilin accessory protein (PilO); Region: PAP_PilO; pfam06864 296591015691 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 296591015692 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 296591015693 RRXRR protein; Region: RRXRR; pfam14239 296591015694 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 296591015695 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 296591015696 VirB7 interaction site; other site 296591015697 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 296591015698 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 296591015699 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 296591015700 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 296591015701 VirB7 interaction site; other site 296591015702 VirB8 protein; Region: VirB8; cl01500 296591015703 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 296591015704 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 296591015705 Walker A motif; other site 296591015706 ATP binding site [chemical binding]; other site 296591015707 Walker B motif; other site 296591015708 arginine finger; other site 296591015709 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 296591015710 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 296591015711 Walker A motif; other site 296591015712 ATP binding site [chemical binding]; other site 296591015713 Walker B motif; other site 296591015714 arginine finger; other site 296591015715 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 296591015716 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 296591015717 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 296591015718 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 296591015719 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 296591015720 ATP binding site [chemical binding]; other site 296591015721 Walker A motif; other site 296591015722 hexamer interface [polypeptide binding]; other site 296591015723 Walker B motif; other site 296591015724 Domain of unknown function (DUF4400); Region: DUF4400; cl14023 296591015725 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 296591015726 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591015727 Walker B motif; other site 296591015728 Putative helicase; Region: TraI_2; pfam07514 296591015729 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 296591015730 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 296591015731 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 296591015732 active site residue [active] 296591015733 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 296591015734 Fatty acid desaturase; Region: FA_desaturase; pfam00487 296591015735 putative di-iron ligands [ion binding]; other site 296591015736 Autoinducer binding domain; Region: Autoind_bind; pfam03472 296591015737 Helix-turn-helix domains; Region: HTH; cl00088 296591015738 dimerization interface [polypeptide binding]; other site 296591015739 DNA binding residues [nucleotide binding] 296591015740 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 296591015741 RRXRR protein; Region: RRXRR; pfam14239 296591015742 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 296591015743 active site 296591015744 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 296591015745 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 296591015746 conjugal transfer protein TrbA; Provisional; Region: PRK13890 296591015747 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 296591015748 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 296591015749 Family description; Region: UvrD_C_2; cl15862 296591015750 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 296591015751 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 296591015752 CHC2 zinc finger; Region: zf-CHC2; cl15369 296591015753 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 296591015754 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 296591015755 metal ion-dependent adhesion site (MIDAS); other site 296591015756 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 296591015757 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 296591015758 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 296591015759 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 296591015760 active site 296591015761 dimer interface [polypeptide binding]; other site 296591015762 effector binding site; other site 296591015763 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 296591015764 KTSC domain; Region: KTSC; pfam13619 296591015765 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 296591015766 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 296591015767 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 296591015768 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 296591015769 ATP binding site [chemical binding]; other site 296591015770 substrate interface [chemical binding]; other site 296591015771 Domain of unknown function (DUF2016); Region: DUF2016; pfam09436 296591015772 PRTRC system protein A; Region: PRTRC_A; TIGR03735 296591015773 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 296591015774 Prokaryotic E2 family D; Region: Prok-E2_D; cl14019 296591015775 Alpha-helical domain 2; Region: alpha-hel2; pfam14456 296591015776 Prokaryotic Ubiquitin; Region: Prok_Ub; cl14020 296591015777 Helix-turn-helix domains; Region: HTH; cl00088 296591015778 Initiator Replication protein; Region: Rep_3; cl03080 296591015779 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 296591015780 ParB-like nuclease domain; Region: ParBc; cl02129 296591015781 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 296591015782 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 296591015783 P-loop; other site 296591015784 Magnesium ion binding site [ion binding]; other site 296591015785 Phage integrase protein; Region: DUF3701; pfam12482 296591015786 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 296591015787 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 296591015788 DNA binding site [nucleotide binding] 296591015789 Int/Topo IB signature motif; other site 296591015790 active site 296591015791 Flagellin N-methylase; Region: FliB; cl00497 296591015792 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 296591015793 RES domain; Region: RES; cl02411 296591015794 Phage integrase protein; Region: DUF3701; pfam12482 296591015795 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 296591015796 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 296591015797 Int/Topo IB signature motif; other site 296591015798 Transposase domain (DUF772); Region: DUF772; cl15789 296591015799 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 296591015800 Transposase domain (DUF772); Region: DUF772; cl15789 296591015801 Transposase domain (DUF772); Region: DUF772; cl15789 296591015802 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 296591015803 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 296591015804 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 296591015805 Integrase core domain; Region: rve; cl01316 296591015806 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 296591015807 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 296591015808 Helix-turn-helix domains; Region: HTH; cl00088 296591015809 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 296591015810 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 296591015811 Transposase; Region: DDE_Tnp_ISL3; pfam01610 296591015812 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 296591015813 Transposase; Region: DEDD_Tnp_IS110; pfam01548 296591015814 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 296591015815 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 296591015816 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 296591015817 YokU-like protein; Region: YokU; cl15819 296591015818 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 296591015819 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 296591015820 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 296591015821 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 296591015822 DNA binding site [nucleotide binding] 296591015823 Int/Topo IB signature motif; other site 296591015824 active site 296591015825 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 296591015826 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 296591015827 FMN binding site [chemical binding]; other site 296591015828 active site 296591015829 substrate binding site [chemical binding]; other site 296591015830 catalytic residue [active] 296591015831 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591015832 Helix-turn-helix domains; Region: HTH; cl00088 296591015833 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 296591015834 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 296591015835 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 296591015836 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591015837 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; cd05120 296591015838 active site 296591015839 ATP binding site [chemical binding]; other site 296591015840 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 296591015841 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 296591015842 hypothetical protein; Provisional; Region: PRK10279 296591015843 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 296591015844 nucleophile elbow; other site 296591015845 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 296591015846 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 296591015847 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 296591015848 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 296591015849 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 296591015850 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 296591015851 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 296591015852 Major Facilitator Superfamily; Region: MFS_1; pfam07690 296591015853 putative substrate translocation pore; other site 296591015854 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 296591015855 6-hydroxyhexanoate dehydrogenase; Region: 6_hydroxyhexanoate_dh_like; cd08240 296591015856 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 296591015857 putative NAD(P) binding site [chemical binding]; other site 296591015858 catalytic Zn binding site [ion binding]; other site 296591015859 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591015860 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 296591015861 NAD(P) binding site [chemical binding]; other site 296591015862 active site 296591015863 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 296591015864 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591015865 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 296591015866 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 296591015867 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 296591015868 Helix-turn-helix domains; Region: HTH; cl00088 296591015869 Integrase core domain; Region: rve; cl01316 296591015870 Winged helix-turn helix; Region: HTH_29; pfam13551 296591015871 Helix-turn-helix domains; Region: HTH; cl00088 296591015872 Winged helix-turn helix; Region: HTH_33; pfam13592 296591015873 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591015874 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591015875 Transposase; Region: DEDD_Tnp_IS110; pfam01548 296591015876 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 296591015877 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371