-- dump date 20140619_060703 -- class Genbank::misc_feature -- table misc_feature_note -- id note 398578000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 398578000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 398578000003 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 398578000004 Walker A motif; other site 398578000005 ATP binding site [chemical binding]; other site 398578000006 Walker B motif; other site 398578000007 arginine finger; other site 398578000008 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 398578000009 DnaA box-binding interface [nucleotide binding]; other site 398578000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 398578000011 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 398578000012 putative DNA binding surface [nucleotide binding]; other site 398578000013 dimer interface [polypeptide binding]; other site 398578000014 beta-clamp/clamp loader binding surface; other site 398578000015 beta-clamp/translesion DNA polymerase binding surface; other site 398578000016 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 398578000017 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 398578000018 ATP binding site [chemical binding]; other site 398578000019 Mg2+ binding site [ion binding]; other site 398578000020 G-X-G motif; other site 398578000021 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 398578000022 anchoring element; other site 398578000023 dimer interface [polypeptide binding]; other site 398578000024 ATP binding site [chemical binding]; other site 398578000025 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 398578000026 active site 398578000027 putative metal-binding site [ion binding]; other site 398578000028 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 398578000029 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578000030 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578000031 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 398578000032 putative substrate binding pocket [chemical binding]; other site 398578000033 dimerization interface [polypeptide binding]; other site 398578000034 uncharacterized proteins similar to the Aspergillus nidulans lactam utilization protein LamB; Region: LamB_YcsF_like_2; cd11664 398578000035 putative active site [active] 398578000036 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 398578000037 carboxyltransferase (CT) interaction site; other site 398578000038 biotinylation site [posttranslational modification]; other site 398578000039 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 398578000040 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398578000041 ATP-grasp domain; Region: ATP-grasp_4; cl17255 398578000042 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 398578000043 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 398578000044 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 398578000045 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 398578000046 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398578000047 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398578000048 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578000049 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578000050 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 398578000051 putative dimerization interface [polypeptide binding]; other site 398578000052 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578000053 (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 398578000054 active site 398578000055 catalytic site [active] 398578000056 Flagellin N-methylase; Region: FliB; pfam03692 398578000057 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 398578000058 dimerization interface [polypeptide binding]; other site 398578000059 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398578000060 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 398578000061 ATP binding site [chemical binding]; other site 398578000062 Mg2+ binding site [ion binding]; other site 398578000063 G-X-G motif; other site 398578000064 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398578000065 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 398578000066 active site 398578000067 phosphorylation site [posttranslational modification] 398578000068 intermolecular recognition site; other site 398578000069 dimerization interface [polypeptide binding]; other site 398578000070 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 398578000071 DNA binding site [nucleotide binding] 398578000072 Outer membrane efflux protein; Region: OEP; pfam02321 398578000073 Outer membrane efflux protein; Region: OEP; pfam02321 398578000074 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 398578000075 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398578000076 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 398578000077 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578000078 NADH dehydrogenase [ubiquinone] flavoprotein 1; Provisional; Region: PTZ00304 398578000079 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 398578000080 DEAD/DEAH box helicase; Region: DEAD; pfam00270 398578000081 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 398578000082 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 398578000083 LTXXQ motif family protein; Region: LTXXQ; pfam07813 398578000084 recombination associated protein; Reviewed; Region: rdgC; PRK00321 398578000085 beta-ketothiolase; Provisional; Region: PRK09051 398578000086 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 398578000087 dimer interface [polypeptide binding]; other site 398578000088 active site 398578000089 enoyl-CoA hydratase; Provisional; Region: PRK06688 398578000090 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 398578000091 substrate binding site [chemical binding]; other site 398578000092 oxyanion hole (OAH) forming residues; other site 398578000093 trimer interface [polypeptide binding]; other site 398578000094 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 398578000095 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578000096 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578000097 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 398578000098 acyl-activating enzyme (AAE) consensus motif; other site 398578000099 acyl-activating enzyme (AAE) consensus motif; other site 398578000100 putative AMP binding site [chemical binding]; other site 398578000101 putative active site [active] 398578000102 putative CoA binding site [chemical binding]; other site 398578000103 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398578000104 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 398578000105 Walker A/P-loop; other site 398578000106 ATP binding site [chemical binding]; other site 398578000107 Q-loop/lid; other site 398578000108 ABC transporter signature motif; other site 398578000109 Walker B; other site 398578000110 D-loop; other site 398578000111 H-loop/switch region; other site 398578000112 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398578000113 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 398578000114 putative ligand binding site [chemical binding]; other site 398578000115 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 398578000116 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 398578000117 TM-ABC transporter signature motif; other site 398578000118 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 398578000119 TM-ABC transporter signature motif; other site 398578000120 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398578000121 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 398578000122 Walker A/P-loop; other site 398578000123 ATP binding site [chemical binding]; other site 398578000124 Q-loop/lid; other site 398578000125 ABC transporter signature motif; other site 398578000126 Walker B; other site 398578000127 D-loop; other site 398578000128 H-loop/switch region; other site 398578000129 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578000130 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578000131 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 398578000132 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 398578000133 DNA binding residues [nucleotide binding] 398578000134 dimer interface [polypeptide binding]; other site 398578000135 copper binding site [ion binding]; other site 398578000136 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 398578000137 metal-binding site [ion binding] 398578000138 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 398578000139 dimerization interface [polypeptide binding]; other site 398578000140 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578000141 dimer interface [polypeptide binding]; other site 398578000142 putative CheW interface [polypeptide binding]; other site 398578000143 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 398578000144 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 398578000145 FMN binding site [chemical binding]; other site 398578000146 active site 398578000147 substrate binding site [chemical binding]; other site 398578000148 catalytic residue [active] 398578000149 Predicted flavoprotein [General function prediction only]; Region: COG0431 398578000150 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398578000151 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578000152 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398578000153 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 398578000154 Zn binding site [ion binding]; other site 398578000155 NIPSNAP; Region: NIPSNAP; pfam07978 398578000156 2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase; Region: dhbA_paeA; TIGR04316 398578000157 classical (c) SDRs; Region: SDR_c; cd05233 398578000158 NAD(P) binding site [chemical binding]; other site 398578000159 active site 398578000160 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398578000161 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398578000162 glutathionine S-transferase; Provisional; Region: PRK10542 398578000163 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 398578000164 C-terminal domain interface [polypeptide binding]; other site 398578000165 GSH binding site (G-site) [chemical binding]; other site 398578000166 dimer interface [polypeptide binding]; other site 398578000167 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 398578000168 dimer interface [polypeptide binding]; other site 398578000169 N-terminal domain interface [polypeptide binding]; other site 398578000170 substrate binding pocket (H-site) [chemical binding]; other site 398578000171 Predicted flavoprotein [General function prediction only]; Region: COG0431 398578000172 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398578000173 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 398578000174 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 398578000175 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 398578000176 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 398578000177 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 398578000178 LysE type translocator; Region: LysE; cl00565 398578000179 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 398578000180 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 398578000181 P-loop; other site 398578000182 Magnesium ion binding site [ion binding]; other site 398578000183 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 398578000184 Magnesium ion binding site [ion binding]; other site 398578000185 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 398578000186 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398578000187 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 398578000188 ParB-like nuclease domain; Region: ParB; smart00470 398578000189 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 398578000190 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 398578000191 sulfite oxidase; Provisional; Region: PLN00177 398578000192 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 398578000193 Moco binding site; other site 398578000194 metal coordination site [ion binding]; other site 398578000195 dimerization interface [polypeptide binding]; other site 398578000196 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 398578000197 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398578000198 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 398578000199 DNA binding residues [nucleotide binding] 398578000200 Helix-turn-helix domain; Region: HTH_18; pfam12833 398578000201 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 398578000202 putative substrate translocation pore; other site 398578000203 glutamate carboxypeptidase; Reviewed; Region: PRK06133 398578000204 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 398578000205 metal binding site [ion binding]; metal-binding site 398578000206 dimer interface [polypeptide binding]; other site 398578000207 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578000208 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398578000209 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398578000210 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578000211 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578000212 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 398578000213 putative effector binding pocket; other site 398578000214 dimerization interface [polypeptide binding]; other site 398578000215 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398578000216 FAD binding domain; Region: FAD_binding_4; pfam01565 398578000217 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 398578000218 EF-hand domain pair; Region: EF_hand_5; pfam13499 398578000219 Ca2+ binding site [ion binding]; other site 398578000220 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 398578000221 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 398578000222 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578000223 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 398578000224 dimerization interface [polypeptide binding]; other site 398578000225 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 398578000226 hydroxyglutarate oxidase; Provisional; Region: PRK11728 398578000227 hydroxyglutarate oxidase; Provisional; Region: PRK11728 398578000228 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398578000229 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 398578000230 substrate binding pocket [chemical binding]; other site 398578000231 membrane-bound complex binding site; other site 398578000232 hinge residues; other site 398578000233 aspartate racemase; Region: asp_race; TIGR00035 398578000234 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 398578000235 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 398578000236 4Fe-4S binding domain; Region: Fer4; pfam00037 398578000237 4Fe-4S binding domain; Region: Fer4; cl02805 398578000238 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 398578000239 FAD binding pocket [chemical binding]; other site 398578000240 conserved FAD binding motif [chemical binding]; other site 398578000241 phosphate binding motif [ion binding]; other site 398578000242 beta-alpha-beta structure motif; other site 398578000243 NAD binding pocket [chemical binding]; other site 398578000244 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 398578000245 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 398578000246 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 398578000247 substrate binding site [chemical binding]; other site 398578000248 oxyanion hole (OAH) forming residues; other site 398578000249 trimer interface [polypeptide binding]; other site 398578000250 anaerobic benzoate catabolism transcriptional regulator; Reviewed; Region: PRK08154 398578000251 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 398578000252 sequence-specific DNA binding site [nucleotide binding]; other site 398578000253 salt bridge; other site 398578000254 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 398578000255 ADP binding site [chemical binding]; other site 398578000256 magnesium binding site [ion binding]; other site 398578000257 putative shikimate binding site; other site 398578000258 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 398578000259 Benzoate CoA ligase (BCL) and 4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase); Region: BCL_4HBCL; cd05959 398578000260 dimer interface [polypeptide binding]; other site 398578000261 acyl-activating enzyme (AAE) consensus motif; other site 398578000262 putative active site [active] 398578000263 putative AMP binding site [chemical binding]; other site 398578000264 putative CoA binding site [chemical binding]; other site 398578000265 chemical substrate binding site [chemical binding]; other site 398578000266 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398578000267 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 398578000268 putative ligand binding site [chemical binding]; other site 398578000269 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 398578000270 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398578000271 TM-ABC transporter signature motif; other site 398578000272 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 398578000273 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 398578000274 TM-ABC transporter signature motif; other site 398578000275 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398578000276 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 398578000277 Walker A/P-loop; other site 398578000278 ATP binding site [chemical binding]; other site 398578000279 Q-loop/lid; other site 398578000280 ABC transporter signature motif; other site 398578000281 Walker B; other site 398578000282 D-loop; other site 398578000283 H-loop/switch region; other site 398578000284 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398578000285 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 398578000286 Walker A/P-loop; other site 398578000287 ATP binding site [chemical binding]; other site 398578000288 Q-loop/lid; other site 398578000289 ABC transporter signature motif; other site 398578000290 Walker B; other site 398578000291 D-loop; other site 398578000292 H-loop/switch region; other site 398578000293 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 398578000294 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 398578000295 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 398578000296 CoenzymeA binding site [chemical binding]; other site 398578000297 subunit interaction site [polypeptide binding]; other site 398578000298 PHB binding site; other site 398578000299 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 398578000300 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 398578000301 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 398578000302 uracil-xanthine permease; Region: ncs2; TIGR00801 398578000303 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 398578000304 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 398578000305 acyl-activating enzyme (AAE) consensus motif; other site 398578000306 putative AMP binding site [chemical binding]; other site 398578000307 putative active site [active] 398578000308 putative CoA binding site [chemical binding]; other site 398578000309 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398578000310 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578000311 active site 398578000312 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 398578000313 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398578000314 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578000315 enoyl-CoA hydratase; Provisional; Region: PRK09245 398578000316 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 398578000317 substrate binding site [chemical binding]; other site 398578000318 oxyanion hole (OAH) forming residues; other site 398578000319 trimer interface [polypeptide binding]; other site 398578000320 septum formation inhibitor; Reviewed; Region: PRK01973 398578000321 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 398578000322 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 398578000323 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 398578000324 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 398578000325 Switch I; other site 398578000326 Switch II; other site 398578000327 cell division topological specificity factor MinE; Provisional; Region: PRK13989 398578000328 putative proline-specific permease; Provisional; Region: proY; PRK10580 398578000329 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 398578000330 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 398578000331 active site 398578000332 catalytic site [active] 398578000333 substrate binding site [chemical binding]; other site 398578000334 MarR family; Region: MarR_2; cl17246 398578000335 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 398578000336 succinic semialdehyde dehydrogenase; Region: PLN02278 398578000337 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 398578000338 tetramerization interface [polypeptide binding]; other site 398578000339 NAD(P) binding site [chemical binding]; other site 398578000340 catalytic residues [active] 398578000341 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398578000342 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 398578000343 putative substrate binding pocket [chemical binding]; other site 398578000344 trimer interface [polypeptide binding]; other site 398578000345 Subunit B of the Class III Extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, and simlar enzymes; Region: PCA_45_Doxase_B_like; cd07359 398578000346 active site 398578000347 Fe(II) binding site [ion binding]; other site 398578000348 dimer interface [polypeptide binding]; other site 398578000349 tetramer interface [polypeptide binding]; other site 398578000350 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cd07321 398578000351 dimer interface [polypeptide binding]; other site 398578000352 tetramer interface [polypeptide binding]; other site 398578000353 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578000354 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 398578000355 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 398578000356 NAD binding site [chemical binding]; other site 398578000357 catalytic residues [active] 398578000358 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 398578000359 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 398578000360 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398578000361 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 398578000362 Interdomain contacts; other site 398578000363 Cytokine receptor motif; other site 398578000364 Protein of unknown function (DUF3616); Region: DUF3616; pfam12275 398578000365 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 398578000366 Ligand Binding Site [chemical binding]; other site 398578000367 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 398578000368 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398578000369 active site 398578000370 metal binding site [ion binding]; metal-binding site 398578000371 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578000372 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578000373 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 398578000374 substrate binding pocket [chemical binding]; other site 398578000375 dimerization interface [polypeptide binding]; other site 398578000376 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 398578000377 active site 398578000378 substrate-binding site [chemical binding]; other site 398578000379 metal-binding site [ion binding] 398578000380 GTP binding site [chemical binding]; other site 398578000381 threonine dehydratase; Provisional; Region: PRK07334 398578000382 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 398578000383 tetramer interface [polypeptide binding]; other site 398578000384 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578000385 catalytic residue [active] 398578000386 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 398578000387 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398578000388 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578000389 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 398578000390 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 398578000391 FAD binding pocket [chemical binding]; other site 398578000392 FAD binding motif [chemical binding]; other site 398578000393 phosphate binding motif [ion binding]; other site 398578000394 NAD binding pocket [chemical binding]; other site 398578000395 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 398578000396 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578000397 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 398578000398 acyl-activating enzyme (AAE) consensus motif; other site 398578000399 putative AMP binding site [chemical binding]; other site 398578000400 putative active site [active] 398578000401 putative CoA binding site [chemical binding]; other site 398578000402 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 398578000403 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578000404 active site 398578000405 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578000406 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578000407 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 398578000408 dimerization interface [polypeptide binding]; other site 398578000409 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 398578000410 dimer interface [polypeptide binding]; other site 398578000411 phosphorylation site [posttranslational modification] 398578000412 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 398578000413 ATP binding site [chemical binding]; other site 398578000414 Mg2+ binding site [ion binding]; other site 398578000415 G-X-G motif; other site 398578000416 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398578000417 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 398578000418 active site 398578000419 phosphorylation site [posttranslational modification] 398578000420 intermolecular recognition site; other site 398578000421 dimerization interface [polypeptide binding]; other site 398578000422 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 398578000423 DNA binding site [nucleotide binding] 398578000424 putative major fimbrial protein SthE; Provisional; Region: PRK15292 398578000425 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 398578000426 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398578000427 FtsX-like permease family; Region: FtsX; pfam02687 398578000428 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398578000429 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398578000430 Walker A/P-loop; other site 398578000431 ATP binding site [chemical binding]; other site 398578000432 Q-loop/lid; other site 398578000433 ABC transporter signature motif; other site 398578000434 Walker B; other site 398578000435 D-loop; other site 398578000436 H-loop/switch region; other site 398578000437 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398578000438 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578000439 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 398578000440 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 398578000441 Esterase/lipase [General function prediction only]; Region: COG1647 398578000442 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 398578000443 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 398578000444 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 398578000445 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 398578000446 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 398578000447 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398578000448 catalytic residue [active] 398578000449 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 398578000450 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 398578000451 S-adenosylmethionine binding site [chemical binding]; other site 398578000452 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 398578000453 active site 398578000454 metal binding site [ion binding]; metal-binding site 398578000455 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 398578000456 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 398578000457 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 398578000458 inhibitor-cofactor binding pocket; inhibition site 398578000459 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578000460 catalytic residue [active] 398578000461 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 398578000462 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 398578000463 N-terminal plug; other site 398578000464 ligand-binding site [chemical binding]; other site 398578000465 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 398578000466 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 398578000467 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 398578000468 ATP binding site [chemical binding]; other site 398578000469 putative Mg++ binding site [ion binding]; other site 398578000470 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 398578000471 nucleotide binding region [chemical binding]; other site 398578000472 ATP-binding site [chemical binding]; other site 398578000473 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 398578000474 HRDC domain; Region: HRDC; pfam00570 398578000475 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398578000476 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578000477 active site 398578000478 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398578000479 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398578000480 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578000481 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578000482 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 398578000483 dimerization interface [polypeptide binding]; other site 398578000484 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 398578000485 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 398578000486 substrate binding pocket [chemical binding]; other site 398578000487 membrane-bound complex binding site; other site 398578000488 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 398578000489 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 398578000490 dimer interface [polypeptide binding]; other site 398578000491 conserved gate region; other site 398578000492 putative PBP binding loops; other site 398578000493 ABC-ATPase subunit interface; other site 398578000494 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 398578000495 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 398578000496 Walker A/P-loop; other site 398578000497 ATP binding site [chemical binding]; other site 398578000498 Q-loop/lid; other site 398578000499 ABC transporter signature motif; other site 398578000500 Walker B; other site 398578000501 D-loop; other site 398578000502 H-loop/switch region; other site 398578000503 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 398578000504 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578000505 DNA-binding site [nucleotide binding]; DNA binding site 398578000506 UTRA domain; Region: UTRA; pfam07702 398578000507 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 398578000508 active sites [active] 398578000509 tetramer interface [polypeptide binding]; other site 398578000510 urocanate hydratase; Provisional; Region: PRK05414 398578000511 HutD; Region: HutD; pfam05962 398578000512 imidazolonepropionase; Validated; Region: PRK09356 398578000513 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 398578000514 active site 398578000515 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398578000516 FAD binding domain; Region: FAD_binding_4; pfam01565 398578000517 histidinol-phosphate aminotransferase; Provisional; Region: PRK05166 398578000518 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 398578000519 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578000520 homodimer interface [polypeptide binding]; other site 398578000521 catalytic residue [active] 398578000522 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 398578000523 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 398578000524 active site 398578000525 N-formylglutamate amidohydrolase; Region: FGase; cl01522 398578000526 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 398578000527 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 398578000528 DNA binding residues [nucleotide binding] 398578000529 dimer interface [polypeptide binding]; other site 398578000530 [2Fe-2S] cluster binding site [ion binding]; other site 398578000531 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 398578000532 Helix-turn-helix domain; Region: HTH_18; pfam12833 398578000533 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578000534 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 398578000535 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 398578000536 putative active site [active] 398578000537 putative NTP binding site [chemical binding]; other site 398578000538 putative nucleic acid binding site [nucleotide binding]; other site 398578000539 SWIM zinc finger; Region: SWIM; pfam04434 398578000540 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398578000541 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398578000542 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578000543 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398578000544 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 398578000545 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398578000546 hydroxyglutarate oxidase; Provisional; Region: PRK11728 398578000547 Uncharacterized membrane protein [Function unknown]; Region: COG3949 398578000548 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 398578000549 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 398578000550 non-specific DNA binding site [nucleotide binding]; other site 398578000551 salt bridge; other site 398578000552 sequence-specific DNA binding site [nucleotide binding]; other site 398578000553 Cupin domain; Region: Cupin_2; pfam07883 398578000554 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 398578000555 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 398578000556 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 398578000557 trimer interface [polypeptide binding]; other site 398578000558 eyelet of channel; other site 398578000559 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398578000560 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398578000561 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 398578000562 dimerization interface [polypeptide binding]; other site 398578000563 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578000564 dimer interface [polypeptide binding]; other site 398578000565 putative CheW interface [polypeptide binding]; other site 398578000566 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398578000567 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398578000568 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578000569 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578000570 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 398578000571 putative dimerization interface [polypeptide binding]; other site 398578000572 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 398578000573 CoenzymeA binding site [chemical binding]; other site 398578000574 subunit interaction site [polypeptide binding]; other site 398578000575 PHB binding site; other site 398578000576 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398578000577 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578000578 active site 398578000579 thiolase; Provisional; Region: PRK06158 398578000580 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 398578000581 active site 398578000582 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 398578000583 DUF35 OB-fold domain; Region: DUF35; pfam01796 398578000584 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 398578000585 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 398578000586 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578000587 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398578000588 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 398578000589 putative ligand binding site [chemical binding]; other site 398578000590 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 398578000591 Zinc-dependent alcohol dehydrogenases (ADH) and class III ADG (AKA formaldehyde dehydrogenase); Region: liver_ADH_like1; cd08281 398578000592 NAD binding site [chemical binding]; other site 398578000593 catalytic Zn binding site [ion binding]; other site 398578000594 substrate binding site [chemical binding]; other site 398578000595 structural Zn binding site [ion binding]; other site 398578000596 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 398578000597 Amidase; Region: Amidase; cl11426 398578000598 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578000599 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 398578000600 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578000601 acyl-activating enzyme (AAE) consensus motif; other site 398578000602 AMP binding site [chemical binding]; other site 398578000603 active site 398578000604 CoA binding site [chemical binding]; other site 398578000605 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578000606 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578000607 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578000608 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 398578000609 dimerization interface [polypeptide binding]; other site 398578000610 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398578000611 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398578000612 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 398578000613 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 398578000614 NAD(P) binding site [chemical binding]; other site 398578000615 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578000616 acetyl-CoA acetyltransferase; Provisional; Region: PRK06205 398578000617 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 398578000618 dimer interface [polypeptide binding]; other site 398578000619 active site 398578000620 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 398578000621 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 398578000622 Coenzyme A transferase; Region: CoA_trans; cl17247 398578000623 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 398578000624 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 398578000625 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 398578000626 substrate binding site [chemical binding]; other site 398578000627 oxyanion hole (OAH) forming residues; other site 398578000628 trimer interface [polypeptide binding]; other site 398578000629 Metal-binding domain of MaoC dehydratase; Region: zf-MaoC; pfam13452 398578000630 enoyl-CoA hydratase; Region: PLN02864 398578000631 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 398578000632 dimer interaction site [polypeptide binding]; other site 398578000633 substrate-binding tunnel; other site 398578000634 active site 398578000635 catalytic site [active] 398578000636 substrate binding site [chemical binding]; other site 398578000637 short chain dehydrogenase; Provisional; Region: PRK07791 398578000638 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398578000639 NAD(P) binding site [chemical binding]; other site 398578000640 active site 398578000641 Uncharacterized conserved protein [Function unknown]; Region: COG3777 398578000642 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 398578000643 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 398578000644 active site 2 [active] 398578000645 active site 1 [active] 398578000646 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398578000647 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578000648 active site 398578000649 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398578000650 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398578000651 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 398578000652 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578000653 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 398578000654 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578000655 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 398578000656 CoenzymeA binding site [chemical binding]; other site 398578000657 subunit interaction site [polypeptide binding]; other site 398578000658 PHB binding site; other site 398578000659 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578000660 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 398578000661 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578000662 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 398578000663 acyl-activating enzyme (AAE) consensus motif; other site 398578000664 putative AMP binding site [chemical binding]; other site 398578000665 putative active site [active] 398578000666 putative CoA binding site [chemical binding]; other site 398578000667 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578000668 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 398578000669 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 398578000670 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 398578000671 NAD(P) binding site [chemical binding]; other site 398578000672 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 398578000673 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 398578000674 Peptidase M30; Region: Peptidase_M30; pfam10460 398578000675 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578000676 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578000677 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 398578000678 dimerization interface [polypeptide binding]; other site 398578000679 Predicted membrane protein [Function unknown]; Region: COG4125 398578000680 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 398578000681 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 398578000682 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398578000683 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 398578000684 active site 398578000685 phosphorylation site [posttranslational modification] 398578000686 intermolecular recognition site; other site 398578000687 dimerization interface [polypeptide binding]; other site 398578000688 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 398578000689 DNA binding residues [nucleotide binding] 398578000690 dimerization interface [polypeptide binding]; other site 398578000691 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 398578000692 Prokaryotic RING finger family 1; Region: Prok-RING_1; pfam14446 398578000693 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398578000694 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 398578000695 dimer interface [polypeptide binding]; other site 398578000696 phosphorylation site [posttranslational modification] 398578000697 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 398578000698 ATP binding site [chemical binding]; other site 398578000699 Mg2+ binding site [ion binding]; other site 398578000700 G-X-G motif; other site 398578000701 Response regulator receiver domain; Region: Response_reg; pfam00072 398578000702 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 398578000703 active site 398578000704 phosphorylation site [posttranslational modification] 398578000705 intermolecular recognition site; other site 398578000706 dimerization interface [polypeptide binding]; other site 398578000707 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398578000708 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 398578000709 putative ligand binding site [chemical binding]; other site 398578000710 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 398578000711 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398578000712 TM-ABC transporter signature motif; other site 398578000713 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 398578000714 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 398578000715 TM-ABC transporter signature motif; other site 398578000716 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 398578000717 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 398578000718 Walker A/P-loop; other site 398578000719 ATP binding site [chemical binding]; other site 398578000720 Q-loop/lid; other site 398578000721 ABC transporter signature motif; other site 398578000722 Walker B; other site 398578000723 D-loop; other site 398578000724 H-loop/switch region; other site 398578000725 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 398578000726 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 398578000727 Walker A/P-loop; other site 398578000728 ATP binding site [chemical binding]; other site 398578000729 Q-loop/lid; other site 398578000730 ABC transporter signature motif; other site 398578000731 Walker B; other site 398578000732 D-loop; other site 398578000733 H-loop/switch region; other site 398578000734 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 398578000735 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 398578000736 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398578000737 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 398578000738 Walker A/P-loop; other site 398578000739 ATP binding site [chemical binding]; other site 398578000740 Q-loop/lid; other site 398578000741 ABC transporter signature motif; other site 398578000742 Walker B; other site 398578000743 D-loop; other site 398578000744 H-loop/switch region; other site 398578000745 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 398578000746 dimer interface [polypeptide binding]; other site 398578000747 conserved gate region; other site 398578000748 putative PBP binding loops; other site 398578000749 ABC-ATPase subunit interface; other site 398578000750 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 398578000751 dimer interface [polypeptide binding]; other site 398578000752 conserved gate region; other site 398578000753 putative PBP binding loops; other site 398578000754 ABC-ATPase subunit interface; other site 398578000755 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398578000756 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 398578000757 substrate binding pocket [chemical binding]; other site 398578000758 membrane-bound complex binding site; other site 398578000759 hinge residues; other site 398578000760 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 398578000761 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578000762 DNA-binding site [nucleotide binding]; DNA binding site 398578000763 FCD domain; Region: FCD; pfam07729 398578000764 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 398578000765 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 398578000766 substrate binding pocket [chemical binding]; other site 398578000767 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 398578000768 B12 binding site [chemical binding]; other site 398578000769 cobalt ligand [ion binding]; other site 398578000770 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 398578000771 Uncharacterized protein conserved in bacteria (DUF2195); Region: DUF2195; cl02042 398578000772 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 398578000773 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 398578000774 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 398578000775 active site 398578000776 catalytic site [active] 398578000777 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398578000778 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578000779 DNA-binding site [nucleotide binding]; DNA binding site 398578000780 FCD domain; Region: FCD; pfam07729 398578000781 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 398578000782 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398578000783 citrate-proton symporter; Provisional; Region: PRK15075 398578000784 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 398578000785 putative substrate translocation pore; other site 398578000786 acetylornithine deacetylase; Provisional; Region: PRK07522 398578000787 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 398578000788 metal binding site [ion binding]; metal-binding site 398578000789 putative dimer interface [polypeptide binding]; other site 398578000790 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 398578000791 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 398578000792 PhnA protein; Region: PhnA; pfam03831 398578000793 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 398578000794 pseudouridine synthase; Region: TIGR00093 398578000795 active site 398578000796 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 398578000797 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578000798 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 398578000799 dimerization interface [polypeptide binding]; other site 398578000800 LrgA family; Region: LrgA; pfam03788 398578000801 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 398578000802 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 398578000803 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398578000804 NAD(P) binding site [chemical binding]; other site 398578000805 catalytic residues [active] 398578000806 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 398578000807 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 398578000808 active site 398578000809 tetramer interface [polypeptide binding]; other site 398578000810 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 398578000811 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 398578000812 putative ligand binding site [chemical binding]; other site 398578000813 NAD binding site [chemical binding]; other site 398578000814 catalytic site [active] 398578000815 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578000816 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 398578000817 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 398578000818 putative active site [active] 398578000819 catalytic residue [active] 398578000820 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578000821 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398578000822 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578000823 DNA-binding site [nucleotide binding]; DNA binding site 398578000824 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 398578000825 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 398578000826 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 398578000827 active site 398578000828 tetramer interface [polypeptide binding]; other site 398578000829 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578000830 galactarate dehydratase; Region: galactar-dH20; TIGR03248 398578000831 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 398578000832 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 398578000833 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 398578000834 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 398578000835 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578000836 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578000837 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 398578000838 putative effector binding pocket; other site 398578000839 dimerization interface [polypeptide binding]; other site 398578000840 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398578000841 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 398578000842 TM-ABC transporter signature motif; other site 398578000843 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 398578000844 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 398578000845 TM-ABC transporter signature motif; other site 398578000846 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398578000847 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 398578000848 Walker A/P-loop; other site 398578000849 ATP binding site [chemical binding]; other site 398578000850 Q-loop/lid; other site 398578000851 ABC transporter signature motif; other site 398578000852 Walker B; other site 398578000853 D-loop; other site 398578000854 H-loop/switch region; other site 398578000855 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398578000856 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 398578000857 Walker A/P-loop; other site 398578000858 ATP binding site [chemical binding]; other site 398578000859 Q-loop/lid; other site 398578000860 ABC transporter signature motif; other site 398578000861 Walker B; other site 398578000862 D-loop; other site 398578000863 H-loop/switch region; other site 398578000864 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398578000865 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_3; cd06336 398578000866 putative ligand binding site [chemical binding]; other site 398578000867 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 398578000868 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 398578000869 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398578000870 NAD(P) binding site [chemical binding]; other site 398578000871 active site 398578000872 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398578000873 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398578000874 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 398578000875 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 398578000876 FAD binding pocket [chemical binding]; other site 398578000877 FAD binding motif [chemical binding]; other site 398578000878 phosphate binding motif [ion binding]; other site 398578000879 beta-alpha-beta structure motif; other site 398578000880 NAD binding pocket [chemical binding]; other site 398578000881 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578000882 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578000883 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 398578000884 putative effector binding pocket; other site 398578000885 putative dimerization interface [polypeptide binding]; other site 398578000886 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398578000887 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398578000888 NAD(P) binding site [chemical binding]; other site 398578000889 active site 398578000890 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 398578000891 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 398578000892 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 398578000893 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578000894 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578000895 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 398578000896 putative dimerization interface [polypeptide binding]; other site 398578000897 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 398578000898 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 398578000899 active site residue [active] 398578000900 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 398578000901 active site residue [active] 398578000902 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 398578000903 active site residue [active] 398578000904 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 398578000905 active site residue [active] 398578000906 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578000907 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 398578000908 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 398578000909 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398578000910 catalytic residue [active] 398578000911 Nitronate monooxygenase; Region: NMO; pfam03060 398578000912 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 398578000913 FMN binding site [chemical binding]; other site 398578000914 substrate binding site [chemical binding]; other site 398578000915 putative catalytic residue [active] 398578000916 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 398578000917 putative substrate translocation pore; other site 398578000918 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578000919 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578000920 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 398578000921 dimerization interface [polypeptide binding]; other site 398578000922 HipA N-terminal domain; Region: Couple_hipA; pfam13657 398578000923 HipA-like N-terminal domain; Region: HipA_N; pfam07805 398578000924 HipA-like C-terminal domain; Region: HipA_C; pfam07804 398578000925 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398578000926 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 398578000927 non-specific DNA binding site [nucleotide binding]; other site 398578000928 salt bridge; other site 398578000929 sequence-specific DNA binding site [nucleotide binding]; other site 398578000930 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 398578000931 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 398578000932 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 398578000933 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 398578000934 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 398578000935 homodimer interface [polypeptide binding]; other site 398578000936 catalytic residues [active] 398578000937 NAD binding site [chemical binding]; other site 398578000938 substrate binding pocket [chemical binding]; other site 398578000939 flexible flap; other site 398578000940 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 398578000941 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578000942 DNA-binding site [nucleotide binding]; DNA binding site 398578000943 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 398578000944 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578000945 homodimer interface [polypeptide binding]; other site 398578000946 catalytic residue [active] 398578000947 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 398578000948 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578000949 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 398578000950 putative dimerization interface [polypeptide binding]; other site 398578000951 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 398578000952 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 398578000953 putative substrate translocation pore; other site 398578000954 L-rhamnonate dehydratase; Provisional; Region: PRK15440 398578000955 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 398578000956 putative active site pocket [active] 398578000957 putative metal binding site [ion binding]; other site 398578000958 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 398578000959 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 398578000960 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398578000961 NAD binding site [chemical binding]; other site 398578000962 catalytic residues [active] 398578000963 substrate binding site [chemical binding]; other site 398578000964 Transcriptional regulators [Transcription]; Region: MarR; COG1846 398578000965 MarR family; Region: MarR_2; cl17246 398578000966 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578000967 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 398578000968 Sulfatase; Region: Sulfatase; pfam00884 398578000969 Domain of unknown function (DUF4034); Region: DUF4034; pfam13226 398578000970 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 398578000971 RHS Repeat; Region: RHS_repeat; pfam05593 398578000972 RHS Repeat; Region: RHS_repeat; pfam05593 398578000973 RHS Repeat; Region: RHS_repeat; cl11982 398578000974 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 398578000975 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 398578000976 RHS protein; Region: RHS; pfam03527 398578000977 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 398578000978 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 398578000979 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 398578000980 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 398578000981 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 398578000982 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 398578000983 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 398578000984 Nitrogen regulatory protein P-II; Region: P-II; smart00938 398578000985 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 398578000986 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 398578000987 FAD binding domain; Region: FAD_binding_4; pfam01565 398578000988 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 398578000989 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 398578000990 Cysteine-rich domain; Region: CCG; pfam02754 398578000991 Cysteine-rich domain; Region: CCG; pfam02754 398578000992 ProQ/FINO family; Region: ProQ; pfam04352 398578000993 putative RNA binding sites [nucleotide binding]; other site 398578000994 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 398578000995 lysophospholipid transporter LplT; Provisional; Region: PRK11195 398578000996 alanine racemase; Reviewed; Region: dadX; PRK03646 398578000997 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 398578000998 active site 398578000999 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398578001000 substrate binding site [chemical binding]; other site 398578001001 catalytic residues [active] 398578001002 dimer interface [polypeptide binding]; other site 398578001003 Transcriptional regulators [Transcription]; Region: MarR; COG1846 398578001004 MarR family; Region: MarR_2; pfam12802 398578001005 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 398578001006 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 398578001007 FAD binding pocket [chemical binding]; other site 398578001008 FAD binding motif [chemical binding]; other site 398578001009 phosphate binding motif [ion binding]; other site 398578001010 NAD binding pocket [chemical binding]; other site 398578001011 DNA repair protein RadA; Provisional; Region: PRK11823 398578001012 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 398578001013 Walker A motif/ATP binding site; other site 398578001014 ATP binding site [chemical binding]; other site 398578001015 Walker B motif; other site 398578001016 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 398578001017 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 398578001018 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 398578001019 homodimer interface [polypeptide binding]; other site 398578001020 substrate-cofactor binding pocket; other site 398578001021 catalytic residue [active] 398578001022 Zinc-finger domain; Region: zf-CHCC; cl01821 398578001023 Capsular polysaccharide synthesis protein; Region: Caps_synth; pfam05704 398578001024 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 398578001025 O-Antigen ligase; Region: Wzy_C; pfam04932 398578001026 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 398578001027 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398578001028 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 398578001029 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 398578001030 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 398578001031 active site 398578001032 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 398578001033 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 398578001034 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398578001035 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 398578001036 putative substrate translocation pore; other site 398578001037 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578001038 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578001039 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 398578001040 putative effector binding pocket; other site 398578001041 dimerization interface [polypeptide binding]; other site 398578001042 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 398578001043 dimerization interface [polypeptide binding]; other site 398578001044 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 398578001045 dimer interface [polypeptide binding]; other site 398578001046 phosphorylation site [posttranslational modification] 398578001047 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 398578001048 ATP binding site [chemical binding]; other site 398578001049 Mg2+ binding site [ion binding]; other site 398578001050 G-X-G motif; other site 398578001051 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398578001052 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 398578001053 active site 398578001054 phosphorylation site [posttranslational modification] 398578001055 intermolecular recognition site; other site 398578001056 dimerization interface [polypeptide binding]; other site 398578001057 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 398578001058 DNA binding site [nucleotide binding] 398578001059 AmpG-like permease; Region: 2A0125; TIGR00901 398578001060 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398578001061 Peptidase family M48; Region: Peptidase_M48; pfam01435 398578001062 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 398578001063 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398578001064 NAD binding site [chemical binding]; other site 398578001065 catalytic residues [active] 398578001066 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 398578001067 Double zinc ribbon; Region: DZR; pfam12773 398578001068 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 398578001069 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 398578001070 ligand binding site [chemical binding]; other site 398578001071 homodimer interface [polypeptide binding]; other site 398578001072 NAD(P) binding site [chemical binding]; other site 398578001073 trimer interface B [polypeptide binding]; other site 398578001074 trimer interface A [polypeptide binding]; other site 398578001075 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 398578001076 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 398578001077 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 398578001078 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 398578001079 putative active site [active] 398578001080 putative catalytic site [active] 398578001081 putative DNA binding site [nucleotide binding]; other site 398578001082 putative phosphate binding site [ion binding]; other site 398578001083 metal binding site A [ion binding]; metal-binding site 398578001084 putative AP binding site [nucleotide binding]; other site 398578001085 putative metal binding site B [ion binding]; other site 398578001086 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398578001087 active site 398578001088 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 398578001089 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 398578001090 Trp docking motif [polypeptide binding]; other site 398578001091 putative active site [active] 398578001092 Ligated ion channel L-glutamate- and glycine-binding site; Region: Lig_chan-Glu_bd; cl11668 398578001093 Nitroreductase-like family 2. 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_2; cd02138 398578001094 putative FMN binding site [chemical binding]; other site 398578001095 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 398578001096 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 398578001097 ligand binding site [chemical binding]; other site 398578001098 NAD binding site [chemical binding]; other site 398578001099 tetramer interface [polypeptide binding]; other site 398578001100 catalytic site [active] 398578001101 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 398578001102 L-serine binding site [chemical binding]; other site 398578001103 ACT domain interface; other site 398578001104 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 398578001105 HPP family; Region: HPP; pfam04982 398578001106 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 398578001107 Beta-lactamase; Region: Beta-lactamase; pfam00144 398578001108 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 398578001109 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578001110 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 398578001111 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 398578001112 GatB domain; Region: GatB_Yqey; smart00845 398578001113 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 398578001114 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 398578001115 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 398578001116 rod shape-determining protein MreB; Provisional; Region: PRK13927 398578001117 MreB and similar proteins; Region: MreB_like; cd10225 398578001118 nucleotide binding site [chemical binding]; other site 398578001119 Mg binding site [ion binding]; other site 398578001120 putative protofilament interaction site [polypeptide binding]; other site 398578001121 RodZ interaction site [polypeptide binding]; other site 398578001122 rod shape-determining protein MreC; Provisional; Region: PRK13922 398578001123 rod shape-determining protein MreC; Region: MreC; pfam04085 398578001124 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 398578001125 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 398578001126 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 398578001127 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 398578001128 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398578001129 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 398578001130 Walker A/P-loop; other site 398578001131 ATP binding site [chemical binding]; other site 398578001132 Q-loop/lid; other site 398578001133 ABC transporter signature motif; other site 398578001134 Walker B; other site 398578001135 D-loop; other site 398578001136 H-loop/switch region; other site 398578001137 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 398578001138 dimer interface [polypeptide binding]; other site 398578001139 conserved gate region; other site 398578001140 putative PBP binding loops; other site 398578001141 ABC-ATPase subunit interface; other site 398578001142 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 398578001143 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398578001144 substrate binding pocket [chemical binding]; other site 398578001145 membrane-bound complex binding site; other site 398578001146 hinge residues; other site 398578001147 hypothetical protein; Provisional; Region: PRK10621 398578001148 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 398578001149 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 398578001150 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 398578001151 putative NAD(P) binding site [chemical binding]; other site 398578001152 transcriptional regulator; Provisional; Region: PRK10632 398578001153 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578001154 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 398578001155 putative effector binding pocket; other site 398578001156 putative dimerization interface [polypeptide binding]; other site 398578001157 choline dehydrogenase; Validated; Region: PRK02106 398578001158 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398578001159 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 398578001160 Permease; Region: Permease; pfam02405 398578001161 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 398578001162 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578001163 Walker A/P-loop; other site 398578001164 ATP binding site [chemical binding]; other site 398578001165 Q-loop/lid; other site 398578001166 ABC transporter signature motif; other site 398578001167 Walker B; other site 398578001168 D-loop; other site 398578001169 H-loop/switch region; other site 398578001170 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 398578001171 mce related protein; Region: MCE; pfam02470 398578001172 hypothetical protein; Provisional; Region: PRK10428 398578001173 Hemerythrin; Region: Hemerythrin; cd12107 398578001174 Fe binding site [ion binding]; other site 398578001175 MarC family integral membrane protein; Region: MarC; cl00919 398578001176 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 398578001177 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398578001178 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 398578001179 active site 398578001180 phosphorylation site [posttranslational modification] 398578001181 intermolecular recognition site; other site 398578001182 dimerization interface [polypeptide binding]; other site 398578001183 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 398578001184 dimerization interface [polypeptide binding]; other site 398578001185 DNA binding residues [nucleotide binding] 398578001186 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 398578001187 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 398578001188 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 398578001189 ATP binding site [chemical binding]; other site 398578001190 Mg2+ binding site [ion binding]; other site 398578001191 G-X-G motif; other site 398578001192 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 398578001193 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 398578001194 oligomer interface [polypeptide binding]; other site 398578001195 metal binding site [ion binding]; metal-binding site 398578001196 metal binding site [ion binding]; metal-binding site 398578001197 putative Cl binding site [ion binding]; other site 398578001198 aspartate ring; other site 398578001199 basic sphincter; other site 398578001200 hydrophobic gate; other site 398578001201 periplasmic entrance; other site 398578001202 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 398578001203 dimer interface [polypeptide binding]; other site 398578001204 allosteric magnesium binding site [ion binding]; other site 398578001205 active site 398578001206 aspartate-rich active site metal binding site; other site 398578001207 Schiff base residues; other site 398578001208 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 398578001209 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 398578001210 dimer interface [polypeptide binding]; other site 398578001211 [2Fe-2S] cluster binding site [ion binding]; other site 398578001212 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 398578001213 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 398578001214 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 398578001215 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 398578001216 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 398578001217 S17 interaction site [polypeptide binding]; other site 398578001218 S8 interaction site; other site 398578001219 16S rRNA interaction site [nucleotide binding]; other site 398578001220 streptomycin interaction site [chemical binding]; other site 398578001221 23S rRNA interaction site [nucleotide binding]; other site 398578001222 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 398578001223 30S ribosomal protein S7; Validated; Region: PRK05302 398578001224 elongation factor G; Reviewed; Region: PRK00007 398578001225 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 398578001226 G1 box; other site 398578001227 putative GEF interaction site [polypeptide binding]; other site 398578001228 GTP/Mg2+ binding site [chemical binding]; other site 398578001229 Switch I region; other site 398578001230 G2 box; other site 398578001231 G3 box; other site 398578001232 Switch II region; other site 398578001233 G4 box; other site 398578001234 G5 box; other site 398578001235 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 398578001236 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 398578001237 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 398578001238 elongation factor Tu; Reviewed; Region: PRK00049 398578001239 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 398578001240 G1 box; other site 398578001241 GEF interaction site [polypeptide binding]; other site 398578001242 GTP/Mg2+ binding site [chemical binding]; other site 398578001243 Switch I region; other site 398578001244 G2 box; other site 398578001245 G3 box; other site 398578001246 Switch II region; other site 398578001247 G4 box; other site 398578001248 G5 box; other site 398578001249 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 398578001250 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 398578001251 Antibiotic Binding Site [chemical binding]; other site 398578001252 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 398578001253 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 398578001254 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 398578001255 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 398578001256 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 398578001257 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 398578001258 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 398578001259 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 398578001260 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 398578001261 putative translocon binding site; other site 398578001262 protein-rRNA interface [nucleotide binding]; other site 398578001263 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 398578001264 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 398578001265 G-X-X-G motif; other site 398578001266 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 398578001267 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 398578001268 23S rRNA interface [nucleotide binding]; other site 398578001269 5S rRNA interface [nucleotide binding]; other site 398578001270 putative antibiotic binding site [chemical binding]; other site 398578001271 L25 interface [polypeptide binding]; other site 398578001272 L27 interface [polypeptide binding]; other site 398578001273 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 398578001274 23S rRNA interface [nucleotide binding]; other site 398578001275 putative translocon interaction site; other site 398578001276 signal recognition particle (SRP54) interaction site; other site 398578001277 L23 interface [polypeptide binding]; other site 398578001278 trigger factor interaction site; other site 398578001279 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 398578001280 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 398578001281 catalytic triad [active] 398578001282 dimer interface [polypeptide binding]; other site 398578001283 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 398578001284 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398578001285 Coenzyme A binding pocket [chemical binding]; other site 398578001286 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 398578001287 Cytochrome C' Region: Cytochrom_C_2; pfam01322 398578001288 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 398578001289 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398578001290 catalytic residues [active] 398578001291 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; cl00025 398578001292 active pocket/dimerization site; other site 398578001293 active site 398578001294 phosphorylation site [posttranslational modification] 398578001295 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 398578001296 dimerization domain swap beta strand [polypeptide binding]; other site 398578001297 regulatory protein interface [polypeptide binding]; other site 398578001298 active site 398578001299 regulatory phosphorylation site [posttranslational modification]; other site 398578001300 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 398578001301 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 398578001302 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 398578001303 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 398578001304 lipoyl synthase; Provisional; Region: PRK05481 398578001305 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 398578001306 FeS/SAM binding site; other site 398578001307 lipoate-protein ligase B; Provisional; Region: PRK14346 398578001308 Protein of unknown function (DUF493); Region: DUF493; cl01102 398578001309 ATP synthase I chain; Region: ATP_synt_I; pfam03899 398578001310 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 398578001311 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 398578001312 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 398578001313 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 398578001314 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 398578001315 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 398578001316 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 398578001317 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 398578001318 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 398578001319 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 398578001320 beta subunit interaction interface [polypeptide binding]; other site 398578001321 Walker A motif; other site 398578001322 ATP binding site [chemical binding]; other site 398578001323 Walker B motif; other site 398578001324 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 398578001325 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 398578001326 core domain interface [polypeptide binding]; other site 398578001327 delta subunit interface [polypeptide binding]; other site 398578001328 epsilon subunit interface [polypeptide binding]; other site 398578001329 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 398578001330 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 398578001331 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 398578001332 alpha subunit interaction interface [polypeptide binding]; other site 398578001333 Walker A motif; other site 398578001334 ATP binding site [chemical binding]; other site 398578001335 Walker B motif; other site 398578001336 inhibitor binding site; inhibition site 398578001337 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 398578001338 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 398578001339 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 398578001340 gamma subunit interface [polypeptide binding]; other site 398578001341 epsilon subunit interface [polypeptide binding]; other site 398578001342 LBP interface [polypeptide binding]; other site 398578001343 Repair protein; Region: Repair_PSII; pfam04536 398578001344 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 398578001345 Repair protein; Region: Repair_PSII; pfam04536 398578001346 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 398578001347 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 398578001348 A distinct subfamily of CDD/CDA-like deaminases; Region: LmjF365940-deam; pfam14421 398578001349 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 398578001350 Uncharacterized conserved small protein [Function unknown]; Region: COG5639 398578001351 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 398578001352 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 398578001353 VirB7 interaction site; other site 398578001354 conjugal transfer protein TrbF; Provisional; Region: PRK13872 398578001355 conjugal transfer protein TrbL; Provisional; Region: PRK13875 398578001356 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 398578001357 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 398578001358 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 398578001359 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 398578001360 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 398578001361 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 398578001362 Walker A motif; other site 398578001363 ATP binding site [chemical binding]; other site 398578001364 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 398578001365 Type IV secretory pathway, TrbD component [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TrbD; COG5268 398578001366 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 398578001367 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 398578001368 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 398578001369 ATP binding site [chemical binding]; other site 398578001370 Walker A motif; other site 398578001371 hexamer interface [polypeptide binding]; other site 398578001372 Walker B motif; other site 398578001373 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 398578001374 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 398578001375 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 398578001376 Walker A motif; other site 398578001377 ATP binding site [chemical binding]; other site 398578001378 Walker B motif; other site 398578001379 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578001380 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578001381 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 398578001382 dimerization interface [polypeptide binding]; other site 398578001383 substrate binding pocket [chemical binding]; other site 398578001384 Copper resistance protein K; Region: CopK; pfam11525 398578001385 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 398578001386 CopC domain; Region: CopC; pfam04234 398578001387 YHS domain; Region: YHS; pfam04945 398578001388 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 398578001389 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398578001390 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 398578001391 motif II; other site 398578001392 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 398578001393 Predicted metal-binding protein [General function prediction only]; Region: COG3019 398578001394 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 398578001395 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 398578001396 Multicopper oxidase; Region: Cu-oxidase; pfam00394 398578001397 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 398578001398 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 398578001399 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 398578001400 active site 398578001401 phosphorylation site [posttranslational modification] 398578001402 intermolecular recognition site; other site 398578001403 dimerization interface [polypeptide binding]; other site 398578001404 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 398578001405 DNA binding site [nucleotide binding] 398578001406 sensor kinase CusS; Provisional; Region: PRK09835 398578001407 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 398578001408 dimerization interface [polypeptide binding]; other site 398578001409 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 398578001410 dimer interface [polypeptide binding]; other site 398578001411 phosphorylation site [posttranslational modification] 398578001412 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 398578001413 ATP binding site [chemical binding]; other site 398578001414 G-X-G motif; other site 398578001415 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 398578001416 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 398578001417 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 398578001418 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 398578001419 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 398578001420 ParA-like protein; Provisional; Region: PHA02518 398578001421 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 398578001422 P-loop; other site 398578001423 Magnesium ion binding site [ion binding]; other site 398578001424 Replication initiator protein A; Region: RPA; pfam10134 398578001425 Uncharacterized conserved protein (DUF2285); Region: DUF2285; pfam10074 398578001426 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 398578001427 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398578001428 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 398578001429 non-specific DNA binding site [nucleotide binding]; other site 398578001430 salt bridge; other site 398578001431 sequence-specific DNA binding site [nucleotide binding]; other site 398578001432 Uncharacterized conserved protein [Function unknown]; Region: COG5489 398578001433 Uncharacterized conserved protein [Function unknown]; Region: COG3339 398578001434 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 398578001435 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 398578001436 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 398578001437 putative metal binding site [ion binding]; other site 398578001438 putative homodimer interface [polypeptide binding]; other site 398578001439 putative homotetramer interface [polypeptide binding]; other site 398578001440 putative homodimer-homodimer interface [polypeptide binding]; other site 398578001441 putative allosteric switch controlling residues; other site 398578001442 ParB-like nuclease domain; Region: ParBc; pfam02195 398578001443 Domain of unknown function (DUF932); Region: DUF932; pfam06067 398578001444 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 398578001445 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 398578001446 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 398578001447 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 398578001448 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578001449 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 398578001450 Outer membrane efflux protein; Region: OEP; pfam02321 398578001451 Outer membrane efflux protein; Region: OEP; pfam02321 398578001452 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 398578001453 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 398578001454 DNA binding residues [nucleotide binding] 398578001455 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 398578001456 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 398578001457 DNA binding residues [nucleotide binding] 398578001458 dimer interface [polypeptide binding]; other site 398578001459 putative metal binding site [ion binding]; other site 398578001460 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 398578001461 metal-binding site [ion binding] 398578001462 Heavy-metal-associated domain; Region: HMA; pfam00403 398578001463 metal-binding site [ion binding] 398578001464 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 398578001465 metal-binding site [ion binding] 398578001466 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 398578001467 Heavy-metal-associated domain; Region: HMA; pfam00403 398578001468 metal-binding site [ion binding] 398578001469 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398578001470 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 398578001471 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 398578001472 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 398578001473 Cytochrome c; Region: Cytochrom_C; pfam00034 398578001474 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 398578001475 putative mercuric reductase; Provisional; Region: PRK13748 398578001476 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 398578001477 metal-binding site [ion binding] 398578001478 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398578001479 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398578001480 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 398578001481 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 398578001482 metal-binding site [ion binding] 398578001483 putative mercuric transport protein; Provisional; Region: PRK13751 398578001484 putative transcriptional regulator MerR; Provisional; Region: PRK13752 398578001485 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 398578001486 DNA binding residues [nucleotide binding] 398578001487 dimer interface [polypeptide binding]; other site 398578001488 mercury binding site [ion binding]; other site 398578001489 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 398578001490 putative DNA binding site [nucleotide binding]; other site 398578001491 putative Zn2+ binding site [ion binding]; other site 398578001492 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_20; cd07254 398578001493 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398578001494 putative metal binding site [ion binding]; other site 398578001495 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 398578001496 Low molecular weight phosphatase family; Region: LMWPc; cd00115 398578001497 active site 398578001498 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 398578001499 arsenical-resistance protein; Region: acr3; TIGR00832 398578001500 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 398578001501 ArsC family; Region: ArsC; pfam03960 398578001502 catalytic residues [active] 398578001503 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 398578001504 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398578001505 urea carboxylase; Region: urea_carbox; TIGR02712 398578001506 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 398578001507 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 398578001508 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 398578001509 active site 398578001510 Int/Topo IB signature motif; other site 398578001511 DNA binding site [nucleotide binding] 398578001512 Cytochrome c; Region: Cytochrom_C; cl11414 398578001513 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 398578001514 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 398578001515 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398578001516 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398578001517 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578001518 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 398578001519 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578001520 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 398578001521 elongation factor Tu; Reviewed; Region: PRK00049 398578001522 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 398578001523 G1 box; other site 398578001524 GEF interaction site [polypeptide binding]; other site 398578001525 GTP/Mg2+ binding site [chemical binding]; other site 398578001526 Switch I region; other site 398578001527 G2 box; other site 398578001528 G3 box; other site 398578001529 Switch II region; other site 398578001530 G4 box; other site 398578001531 G5 box; other site 398578001532 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 398578001533 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 398578001534 Antibiotic Binding Site [chemical binding]; other site 398578001535 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 398578001536 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 398578001537 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 398578001538 putative homodimer interface [polypeptide binding]; other site 398578001539 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 398578001540 heterodimer interface [polypeptide binding]; other site 398578001541 homodimer interface [polypeptide binding]; other site 398578001542 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 398578001543 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 398578001544 23S rRNA interface [nucleotide binding]; other site 398578001545 L7/L12 interface [polypeptide binding]; other site 398578001546 putative thiostrepton binding site; other site 398578001547 L25 interface [polypeptide binding]; other site 398578001548 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 398578001549 mRNA/rRNA interface [nucleotide binding]; other site 398578001550 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 398578001551 23S rRNA interface [nucleotide binding]; other site 398578001552 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 398578001553 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 398578001554 peripheral dimer interface [polypeptide binding]; other site 398578001555 core dimer interface [polypeptide binding]; other site 398578001556 L10 interface [polypeptide binding]; other site 398578001557 L11 interface [polypeptide binding]; other site 398578001558 putative EF-Tu interaction site [polypeptide binding]; other site 398578001559 putative EF-G interaction site [polypeptide binding]; other site 398578001560 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 398578001561 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 398578001562 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 398578001563 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 398578001564 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 398578001565 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 398578001566 RPB3 interaction site [polypeptide binding]; other site 398578001567 RPB1 interaction site [polypeptide binding]; other site 398578001568 RPB11 interaction site [polypeptide binding]; other site 398578001569 RPB10 interaction site [polypeptide binding]; other site 398578001570 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 398578001571 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 398578001572 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 398578001573 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 398578001574 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 398578001575 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 398578001576 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 398578001577 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 398578001578 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 398578001579 DNA binding site [nucleotide binding] 398578001580 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 398578001581 16S rRNA methyltransferase B; Provisional; Region: PRK10901 398578001582 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 398578001583 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 398578001584 S-adenosylmethionine binding site [chemical binding]; other site 398578001585 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 398578001586 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 398578001587 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 398578001588 dimerization interface [polypeptide binding]; other site 398578001589 PAS domain; Region: PAS; smart00091 398578001590 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 398578001591 dimer interface [polypeptide binding]; other site 398578001592 phosphorylation site [posttranslational modification] 398578001593 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 398578001594 ATP binding site [chemical binding]; other site 398578001595 Mg2+ binding site [ion binding]; other site 398578001596 G-X-G motif; other site 398578001597 Response regulator receiver domain; Region: Response_reg; pfam00072 398578001598 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 398578001599 active site 398578001600 phosphorylation site [posttranslational modification] 398578001601 intermolecular recognition site; other site 398578001602 dimerization interface [polypeptide binding]; other site 398578001603 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 398578001604 Cupin domain; Region: Cupin_2; pfam07883 398578001605 Transcriptional regulator; Region: Rrf2; cl17282 398578001606 Rrf2 family protein; Region: rrf2_super; TIGR00738 398578001607 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 398578001608 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 398578001609 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 398578001610 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 398578001611 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 398578001612 AAA domain; Region: AAA_30; pfam13604 398578001613 Family description; Region: UvrD_C_2; pfam13538 398578001614 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398578001615 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 398578001616 C-terminal domain interface [polypeptide binding]; other site 398578001617 GSH binding site (G-site) [chemical binding]; other site 398578001618 dimer interface [polypeptide binding]; other site 398578001619 C-terminal, alpha helical domain of an unknown subfamily 9 of Glutathione S-transferases; Region: GST_C_9; cd10424 398578001620 putative N-terminal domain interface [polypeptide binding]; other site 398578001621 putative dimer interface [polypeptide binding]; other site 398578001622 putative substrate binding pocket (H-site) [chemical binding]; other site 398578001623 Protein of unknown function (DUF461); Region: DUF461; pfam04314 398578001624 FIST N domain; Region: FIST; pfam08495 398578001625 FIST C domain; Region: FIST_C; pfam10442 398578001626 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 398578001627 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398578001628 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 398578001629 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 398578001630 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 398578001631 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 398578001632 Flavodoxin; Region: Flavodoxin_1; pfam00258 398578001633 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like1; cd06200 398578001634 FAD binding pocket [chemical binding]; other site 398578001635 FAD binding motif [chemical binding]; other site 398578001636 catalytic residues [active] 398578001637 NAD binding pocket [chemical binding]; other site 398578001638 phosphate binding motif [ion binding]; other site 398578001639 beta-alpha-beta structure motif; other site 398578001640 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 398578001641 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 398578001642 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 398578001643 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 398578001644 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 398578001645 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578001646 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 398578001647 non-specific DNA binding site [nucleotide binding]; other site 398578001648 salt bridge; other site 398578001649 sequence-specific DNA binding site [nucleotide binding]; other site 398578001650 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398578001651 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 398578001652 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 398578001653 putative acyl-acceptor binding pocket; other site 398578001654 Uncharacterized conserved protein [Function unknown]; Region: COG3268 398578001655 yiaA/B two helix domain; Region: YiaAB; cl01759 398578001656 yiaA/B two helix domain; Region: YiaAB; cl01759 398578001657 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 398578001658 Double zinc ribbon; Region: DZR; pfam12773 398578001659 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578001660 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578001661 metal binding site [ion binding]; metal-binding site 398578001662 active site 398578001663 I-site; other site 398578001664 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578001665 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578001666 metal binding site [ion binding]; metal-binding site 398578001667 active site 398578001668 I-site; other site 398578001669 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578001670 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 398578001671 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578001672 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578001673 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 398578001674 dimerization interface [polypeptide binding]; other site 398578001675 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 398578001676 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 398578001677 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 398578001678 Ligand Binding Site [chemical binding]; other site 398578001679 Phospholipase A1; Region: PLA1; pfam02253 398578001680 substrate binding site [chemical binding]; other site 398578001681 dimerization interface [polypeptide binding]; other site 398578001682 active site 398578001683 calcium binding site [ion binding]; other site 398578001684 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 398578001685 Part of AAA domain; Region: AAA_19; pfam13245 398578001686 Family description; Region: UvrD_C_2; pfam13538 398578001687 membrane glycoprotein; Provisional; Region: PHA03332 398578001688 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 398578001689 G1 box; other site 398578001690 GTP/Mg2+ binding site [chemical binding]; other site 398578001691 G2 box; other site 398578001692 Switch I region; other site 398578001693 G3 box; other site 398578001694 Switch II region; other site 398578001695 G4 box; other site 398578001696 Predicted permeases [General function prediction only]; Region: COG0679 398578001697 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 398578001698 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 398578001699 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 398578001700 Ligand binding site; other site 398578001701 Putative Catalytic site; other site 398578001702 DXD motif; other site 398578001703 GtrA-like protein; Region: GtrA; pfam04138 398578001704 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 398578001705 putative active site [active] 398578001706 YdjC motif; other site 398578001707 Mg binding site [ion binding]; other site 398578001708 putative homodimer interface [polypeptide binding]; other site 398578001709 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 398578001710 active site 398578001711 homodimer interface [polypeptide binding]; other site 398578001712 homotetramer interface [polypeptide binding]; other site 398578001713 primosome assembly protein PriA; Validated; Region: PRK05580 398578001714 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 398578001715 ATP binding site [chemical binding]; other site 398578001716 putative Mg++ binding site [ion binding]; other site 398578001717 helicase superfamily c-terminal domain; Region: HELICc; smart00490 398578001718 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 398578001719 substrate binding site [chemical binding]; other site 398578001720 active site 398578001721 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578001722 enoyl-CoA hydratase; Provisional; Region: PRK08140 398578001723 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 398578001724 substrate binding site [chemical binding]; other site 398578001725 oxyanion hole (OAH) forming residues; other site 398578001726 trimer interface [polypeptide binding]; other site 398578001727 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 398578001728 CoenzymeA binding site [chemical binding]; other site 398578001729 subunit interaction site [polypeptide binding]; other site 398578001730 PHB binding site; other site 398578001731 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578001732 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 398578001733 acyl-activating enzyme (AAE) consensus motif; other site 398578001734 AMP binding site [chemical binding]; other site 398578001735 active site 398578001736 CoA binding site [chemical binding]; other site 398578001737 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578001738 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578001739 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398578001740 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 398578001741 putative ligand binding site [chemical binding]; other site 398578001742 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 398578001743 TM-ABC transporter signature motif; other site 398578001744 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 398578001745 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 398578001746 TM-ABC transporter signature motif; other site 398578001747 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398578001748 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 398578001749 Walker A/P-loop; other site 398578001750 ATP binding site [chemical binding]; other site 398578001751 Q-loop/lid; other site 398578001752 ABC transporter signature motif; other site 398578001753 Walker B; other site 398578001754 D-loop; other site 398578001755 H-loop/switch region; other site 398578001756 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398578001757 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 398578001758 Walker A/P-loop; other site 398578001759 ATP binding site [chemical binding]; other site 398578001760 Q-loop/lid; other site 398578001761 ABC transporter signature motif; other site 398578001762 Walker B; other site 398578001763 D-loop; other site 398578001764 H-loop/switch region; other site 398578001765 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578001766 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 398578001767 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398578001768 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398578001769 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 398578001770 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398578001771 Bacterial transcriptional regulator; Region: IclR; pfam01614 398578001772 Cache domain; Region: Cache_1; pfam02743 398578001773 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 398578001774 dimerization interface [polypeptide binding]; other site 398578001775 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398578001776 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578001777 dimer interface [polypeptide binding]; other site 398578001778 putative CheW interface [polypeptide binding]; other site 398578001779 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 398578001780 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 398578001781 Na+/H+ antiporter [Inorganic ion transport and metabolism]; Region: NhaA; COG3004 398578001782 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 398578001783 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 398578001784 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 398578001785 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 398578001786 DsbD alpha interface [polypeptide binding]; other site 398578001787 catalytic residues [active] 398578001788 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578001789 Creatinine amidohydrolase; Region: Creatininase; pfam02633 398578001790 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578001791 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 398578001792 catalytic core [active] 398578001793 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 398578001794 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 398578001795 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 398578001796 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 398578001797 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578001798 homodimer interface [polypeptide binding]; other site 398578001799 catalytic residue [active] 398578001800 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398578001801 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 398578001802 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578001803 DNA-binding site [nucleotide binding]; DNA binding site 398578001804 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 398578001805 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578001806 homodimer interface [polypeptide binding]; other site 398578001807 catalytic residue [active] 398578001808 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 398578001809 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398578001810 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 398578001811 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 398578001812 DNA binding residues [nucleotide binding] 398578001813 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 398578001814 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 398578001815 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 398578001816 FHIPEP family; Region: FHIPEP; pfam00771 398578001817 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 398578001818 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 398578001819 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 398578001820 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 398578001821 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 398578001822 active site 398578001823 phosphorylation site [posttranslational modification] 398578001824 intermolecular recognition site; other site 398578001825 dimerization interface [polypeptide binding]; other site 398578001826 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 398578001827 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 398578001828 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398578001829 ligand binding site [chemical binding]; other site 398578001830 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 398578001831 flagellar motor stator protein MotA; Region: MotA1; TIGR03818 398578001832 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398578001833 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 398578001834 TPR motif; other site 398578001835 binding surface 398578001836 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 398578001837 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 398578001838 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398578001839 catalytic residue [active] 398578001840 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 398578001841 putative trimer interface [polypeptide binding]; other site 398578001842 putative CoA binding site [chemical binding]; other site 398578001843 Methyltransferase domain; Region: Methyltransf_23; pfam13489 398578001844 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 398578001845 S-adenosylmethionine binding site [chemical binding]; other site 398578001846 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 398578001847 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 398578001848 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 398578001849 [2Fe-2S] cluster binding site [ion binding]; other site 398578001850 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 398578001851 alpha subunit interface [polypeptide binding]; other site 398578001852 active site 398578001853 substrate binding site [chemical binding]; other site 398578001854 Fe binding site [ion binding]; other site 398578001855 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 398578001856 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 398578001857 putative trimer interface [polypeptide binding]; other site 398578001858 putative CoA binding site [chemical binding]; other site 398578001859 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 398578001860 classical (c) SDRs; Region: SDR_c; cd05233 398578001861 NAD(P) binding site [chemical binding]; other site 398578001862 active site 398578001863 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 398578001864 classical (c) SDRs; Region: SDR_c; cd05233 398578001865 NAD(P) binding site [chemical binding]; other site 398578001866 active site 398578001867 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 398578001868 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 398578001869 dimer interface [polypeptide binding]; other site 398578001870 active site 398578001871 CoA binding pocket [chemical binding]; other site 398578001872 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 398578001873 TPR repeat; Region: TPR_11; pfam13414 398578001874 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 398578001875 TPR motif; other site 398578001876 binding surface 398578001877 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 398578001878 binding surface 398578001879 TPR motif; other site 398578001880 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 398578001881 TPR motif; other site 398578001882 TPR repeat; Region: TPR_11; pfam13414 398578001883 binding surface 398578001884 flagellin; Provisional; Region: PRK12802 398578001885 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 398578001886 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 398578001887 flagellin; Provisional; Region: PRK12802 398578001888 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 398578001889 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 398578001890 flagellar capping protein; Reviewed; Region: fliD; PRK08032 398578001891 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 398578001892 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 398578001893 Flagellar protein FliS; Region: FliS; cl00654 398578001894 Flagellar protein FliT; Region: FliT; pfam05400 398578001895 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 398578001896 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 398578001897 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 398578001898 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 398578001899 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 398578001900 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 398578001901 Rod binding protein; Region: Rod-binding; cl01626 398578001902 flagellar rod assembly protein/muramidase FlgJ; Region: flagell_FlgJ; TIGR02541 398578001903 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 398578001904 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 398578001905 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 398578001906 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 398578001907 Flagellar L-ring protein; Region: FlgH; pfam02107 398578001908 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 398578001909 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 398578001910 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 398578001911 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 398578001912 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 398578001913 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 398578001914 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 398578001915 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 398578001916 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 398578001917 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 398578001918 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 398578001919 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 398578001920 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 398578001921 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 398578001922 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 398578001923 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 398578001924 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 398578001925 SAF-like; Region: SAF_2; pfam13144 398578001926 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 398578001927 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 398578001928 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 398578001929 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 398578001930 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 398578001931 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 398578001932 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 398578001933 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 398578001934 FliG C-terminal domain; Region: FliG_C; pfam01706 398578001935 flagellar assembly protein H; Validated; Region: fliH; PRK06032 398578001936 Flagellar assembly protein FliH; Region: FliH; pfam02108 398578001937 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 398578001938 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 398578001939 Walker A motif/ATP binding site; other site 398578001940 Walker B motif; other site 398578001941 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 398578001942 Flagellar FliJ protein; Region: FliJ; pfam02050 398578001943 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 398578001944 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 398578001945 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 398578001946 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 398578001947 flagellar motor switch protein; Validated; Region: fliN; PRK05698 398578001948 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 398578001949 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 398578001950 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 398578001951 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 398578001952 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 398578001953 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398578001954 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 398578001955 active site 398578001956 phosphorylation site [posttranslational modification] 398578001957 intermolecular recognition site; other site 398578001958 dimerization interface [polypeptide binding]; other site 398578001959 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 398578001960 DNA binding residues [nucleotide binding] 398578001961 dimerization interface [polypeptide binding]; other site 398578001962 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398578001963 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 398578001964 active site 398578001965 phosphorylation site [posttranslational modification] 398578001966 intermolecular recognition site; other site 398578001967 dimerization interface [polypeptide binding]; other site 398578001968 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 398578001969 Histidine kinase; Region: HisKA_3; pfam07730 398578001970 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 398578001971 ATP binding site [chemical binding]; other site 398578001972 Mg2+ binding site [ion binding]; other site 398578001973 G-X-G motif; other site 398578001974 Response regulator receiver domain; Region: Response_reg; pfam00072 398578001975 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 398578001976 active site 398578001977 phosphorylation site [posttranslational modification] 398578001978 intermolecular recognition site; other site 398578001979 dimerization interface [polypeptide binding]; other site 398578001980 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 398578001981 putative binding surface; other site 398578001982 active site 398578001983 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 398578001984 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 398578001985 ATP binding site [chemical binding]; other site 398578001986 Mg2+ binding site [ion binding]; other site 398578001987 G-X-G motif; other site 398578001988 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 398578001989 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 398578001990 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 398578001991 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 398578001992 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 398578001993 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13487 398578001994 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 398578001995 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 398578001996 active site 398578001997 phosphorylation site [posttranslational modification] 398578001998 intermolecular recognition site; other site 398578001999 dimerization interface [polypeptide binding]; other site 398578002000 CheB methylesterase; Region: CheB_methylest; pfam01339 398578002001 ABC transporter ATPase component; Reviewed; Region: PRK11147 398578002002 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578002003 Walker A/P-loop; other site 398578002004 ATP binding site [chemical binding]; other site 398578002005 Q-loop/lid; other site 398578002006 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398578002007 ABC transporter signature motif; other site 398578002008 Walker B; other site 398578002009 ABC transporter; Region: ABC_tran_2; pfam12848 398578002010 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398578002011 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 398578002012 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 398578002013 putative active site [active] 398578002014 putative dimer interface [polypeptide binding]; other site 398578002015 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 398578002016 active site 1 [active] 398578002017 dimer interface [polypeptide binding]; other site 398578002018 hexamer interface [polypeptide binding]; other site 398578002019 active site 2 [active] 398578002020 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 398578002021 malate synthase G; Provisional; Region: PRK02999 398578002022 active site 398578002023 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578002024 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578002025 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 398578002026 putative effector binding pocket; other site 398578002027 dimerization interface [polypeptide binding]; other site 398578002028 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 398578002029 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 398578002030 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 398578002031 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 398578002032 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398578002033 active site 398578002034 HIGH motif; other site 398578002035 nucleotide binding site [chemical binding]; other site 398578002036 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 398578002037 KMSK motif region; other site 398578002038 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 398578002039 tRNA binding surface [nucleotide binding]; other site 398578002040 anticodon binding site; other site 398578002041 Sporulation related domain; Region: SPOR; pfam05036 398578002042 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 398578002043 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 398578002044 catalytic residues [active] 398578002045 hinge region; other site 398578002046 alpha helical domain; other site 398578002047 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 398578002048 OstA-like protein; Region: OstA; pfam03968 398578002049 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 398578002050 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 398578002051 Walker A/P-loop; other site 398578002052 ATP binding site [chemical binding]; other site 398578002053 Q-loop/lid; other site 398578002054 ABC transporter signature motif; other site 398578002055 Walker B; other site 398578002056 D-loop; other site 398578002057 H-loop/switch region; other site 398578002058 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 398578002059 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 398578002060 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 398578002061 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 398578002062 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 398578002063 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 398578002064 Walker A motif; other site 398578002065 ATP binding site [chemical binding]; other site 398578002066 Walker B motif; other site 398578002067 arginine finger; other site 398578002068 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 398578002069 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 398578002070 hypothetical protein; Reviewed; Region: PRK09588 398578002071 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 398578002072 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 398578002073 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 398578002074 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...; Region: RNA_Cyclase_Class_II; cd00874 398578002075 putative active site [active] 398578002076 adenylation catalytic residue [active] 398578002077 Arginase family; Region: Arginase; cd09989 398578002078 active site 398578002079 Mn binding site [ion binding]; other site 398578002080 oligomer interface [polypeptide binding]; other site 398578002081 ornithine cyclodeaminase; Validated; Region: PRK07589 398578002082 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 398578002083 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 398578002084 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 398578002085 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 398578002086 PIN domain; Region: PIN_3; pfam13470 398578002087 multidrug efflux system protein; Provisional; Region: PRK11431 398578002088 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398578002089 Coenzyme A binding pocket [chemical binding]; other site 398578002090 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 398578002091 Cytochrome P450; Region: p450; cl12078 398578002092 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 398578002093 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 398578002094 FMN-binding pocket [chemical binding]; other site 398578002095 flavin binding motif; other site 398578002096 phosphate binding motif [ion binding]; other site 398578002097 beta-alpha-beta structure motif; other site 398578002098 NAD binding pocket [chemical binding]; other site 398578002099 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 398578002100 catalytic loop [active] 398578002101 iron binding site [ion binding]; other site 398578002102 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578002103 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 398578002104 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398578002105 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398578002106 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398578002107 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398578002108 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398578002109 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578002110 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 398578002111 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398578002112 NAD(P) binding site [chemical binding]; other site 398578002113 active site 398578002114 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 398578002115 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 398578002116 dimer interface [polypeptide binding]; other site 398578002117 active site 398578002118 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578002119 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 398578002120 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 398578002121 acyl-activating enzyme (AAE) consensus motif; other site 398578002122 putative active site [active] 398578002123 putative AMP binding site [chemical binding]; other site 398578002124 putative CoA binding site [chemical binding]; other site 398578002125 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578002126 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398578002127 active site 398578002128 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 398578002129 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 398578002130 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 398578002131 Uncharacterized conserved protein [Function unknown]; Region: COG4104 398578002132 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 398578002133 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 398578002134 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 398578002135 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 398578002136 SEC-C motif; Region: SEC-C; pfam02810 398578002137 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 398578002138 non-specific DNA binding site [nucleotide binding]; other site 398578002139 salt bridge; other site 398578002140 sequence-specific DNA binding site [nucleotide binding]; other site 398578002141 Competence-damaged protein; Region: CinA; pfam02464 398578002142 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 398578002143 tetramer interfaces [polypeptide binding]; other site 398578002144 binuclear metal-binding site [ion binding]; other site 398578002145 conserved hypothetical protein; Region: TIGR02231 398578002146 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 398578002147 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 398578002148 thiamine monophosphate kinase; Provisional; Region: PRK05731 398578002149 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 398578002150 ATP binding site [chemical binding]; other site 398578002151 dimerization interface [polypeptide binding]; other site 398578002152 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 398578002153 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578002154 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 398578002155 putative dimerization interface [polypeptide binding]; other site 398578002156 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 398578002157 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578002158 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 398578002159 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 398578002160 Site-specific recombinase; Region: SpecificRecomb; pfam10136 398578002161 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 398578002162 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 398578002163 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 398578002164 substrate binding site [chemical binding]; other site 398578002165 hexamer interface [polypeptide binding]; other site 398578002166 metal binding site [ion binding]; metal-binding site 398578002167 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398578002168 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 398578002169 trimer interface [polypeptide binding]; other site 398578002170 eyelet of channel; other site 398578002171 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 398578002172 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 398578002173 active site 398578002174 phosphorylation site [posttranslational modification] 398578002175 intermolecular recognition site; other site 398578002176 dimerization interface [polypeptide binding]; other site 398578002177 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 398578002178 DNA binding site [nucleotide binding] 398578002179 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 398578002180 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 398578002181 PYR/PP interface [polypeptide binding]; other site 398578002182 dimer interface [polypeptide binding]; other site 398578002183 TPP binding site [chemical binding]; other site 398578002184 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398578002185 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 398578002186 TPP-binding site [chemical binding]; other site 398578002187 dimer interface [polypeptide binding]; other site 398578002188 DctM-like transporters; Region: DctM; pfam06808 398578002189 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 398578002190 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 398578002191 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 398578002192 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 398578002193 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398578002194 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398578002195 NAD(P) binding site [chemical binding]; other site 398578002196 active site 398578002197 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578002198 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398578002199 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 398578002200 dimerization interface [polypeptide binding]; other site 398578002201 substrate binding pocket [chemical binding]; other site 398578002202 PAS fold; Region: PAS_4; pfam08448 398578002203 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 398578002204 putative active site [active] 398578002205 heme pocket [chemical binding]; other site 398578002206 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 398578002207 PAS domain; Region: PAS_9; pfam13426 398578002208 putative active site [active] 398578002209 heme pocket [chemical binding]; other site 398578002210 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578002211 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578002212 metal binding site [ion binding]; metal-binding site 398578002213 active site 398578002214 I-site; other site 398578002215 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 398578002216 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 398578002217 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398578002218 putative active site [active] 398578002219 heme pocket [chemical binding]; other site 398578002220 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 398578002221 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 398578002222 putative active site [active] 398578002223 heme pocket [chemical binding]; other site 398578002224 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 398578002225 dimer interface [polypeptide binding]; other site 398578002226 phosphorylation site [posttranslational modification] 398578002227 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 398578002228 ATP binding site [chemical binding]; other site 398578002229 Mg2+ binding site [ion binding]; other site 398578002230 G-X-G motif; other site 398578002231 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 398578002232 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398578002233 substrate binding pocket [chemical binding]; other site 398578002234 membrane-bound complex binding site; other site 398578002235 hinge residues; other site 398578002236 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398578002237 Zn2+ binding site [ion binding]; other site 398578002238 Mg2+ binding site [ion binding]; other site 398578002239 Response regulator receiver domain; Region: Response_reg; pfam00072 398578002240 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 398578002241 active site 398578002242 phosphorylation site [posttranslational modification] 398578002243 intermolecular recognition site; other site 398578002244 dimerization interface [polypeptide binding]; other site 398578002245 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 398578002246 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 398578002247 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398578002248 Zn2+ binding site [ion binding]; other site 398578002249 Mg2+ binding site [ion binding]; other site 398578002250 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398578002251 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 398578002252 dimerization interface [polypeptide binding]; other site 398578002253 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578002254 dimer interface [polypeptide binding]; other site 398578002255 putative CheW interface [polypeptide binding]; other site 398578002256 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 398578002257 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398578002258 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 398578002259 HAMP domain; Region: HAMP; pfam00672 398578002260 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578002261 dimer interface [polypeptide binding]; other site 398578002262 putative CheW interface [polypeptide binding]; other site 398578002263 phosphoglycolate phosphatase; Provisional; Region: PRK13222 398578002264 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 398578002265 motif II; other site 398578002266 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; pfam02675 398578002267 spermidine synthase; Provisional; Region: PRK00811 398578002268 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 398578002269 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 398578002270 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398578002271 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 398578002272 active site 398578002273 phosphorylation site [posttranslational modification] 398578002274 intermolecular recognition site; other site 398578002275 dimerization interface [polypeptide binding]; other site 398578002276 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 398578002277 DNA binding site [nucleotide binding] 398578002278 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398578002279 HAMP domain; Region: HAMP; pfam00672 398578002280 dimerization interface [polypeptide binding]; other site 398578002281 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 398578002282 dimer interface [polypeptide binding]; other site 398578002283 phosphorylation site [posttranslational modification] 398578002284 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 398578002285 ATP binding site [chemical binding]; other site 398578002286 Mg2+ binding site [ion binding]; other site 398578002287 G-X-G motif; other site 398578002288 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 398578002289 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 398578002290 active site 398578002291 nucleophile elbow; other site 398578002292 anthranilate synthase component I; Provisional; Region: PRK13565 398578002293 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 398578002294 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 398578002295 Chorismate mutase type II; Region: CM_2; cl00693 398578002296 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 398578002297 propionate/acetate kinase; Provisional; Region: PRK12379 398578002298 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 398578002299 (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. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 398578002300 dimer interaction site [polypeptide binding]; other site 398578002301 substrate-binding tunnel; other site 398578002302 active site 398578002303 catalytic site [active] 398578002304 substrate binding site [chemical binding]; other site 398578002305 phosphate acetyltransferase; Provisional; Region: PRK11890 398578002306 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 398578002307 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 398578002308 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 398578002309 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 398578002310 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398578002311 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 398578002312 Walker A/P-loop; other site 398578002313 ATP binding site [chemical binding]; other site 398578002314 Q-loop/lid; other site 398578002315 ABC transporter signature motif; other site 398578002316 Walker B; other site 398578002317 D-loop; other site 398578002318 H-loop/switch region; other site 398578002319 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398578002320 Walker A/P-loop; other site 398578002321 ATP binding site [chemical binding]; other site 398578002322 Q-loop/lid; other site 398578002323 ABC transporter signature motif; other site 398578002324 Walker B; other site 398578002325 D-loop; other site 398578002326 H-loop/switch region; other site 398578002327 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 398578002328 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 398578002329 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398578002330 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578002331 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 398578002332 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 398578002333 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 398578002334 NAD binding site [chemical binding]; other site 398578002335 homotetramer interface [polypeptide binding]; other site 398578002336 homodimer interface [polypeptide binding]; other site 398578002337 substrate binding site [chemical binding]; other site 398578002338 active site 398578002339 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 398578002340 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398578002341 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 398578002342 metal ion-dependent adhesion site (MIDAS); other site 398578002343 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 398578002344 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 398578002345 glutamine binding [chemical binding]; other site 398578002346 catalytic triad [active] 398578002347 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 398578002348 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 398578002349 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 398578002350 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 398578002351 active site 398578002352 ribulose/triose binding site [chemical binding]; other site 398578002353 phosphate binding site [ion binding]; other site 398578002354 substrate (anthranilate) binding pocket [chemical binding]; other site 398578002355 product (indole) binding pocket [chemical binding]; other site 398578002356 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 398578002357 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 398578002358 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 398578002359 ligand binding site [chemical binding]; other site 398578002360 active site 398578002361 UGI interface [polypeptide binding]; other site 398578002362 catalytic site [active] 398578002363 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 398578002364 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398578002365 SCP-2 sterol transfer family; Region: SCP2; pfam02036 398578002366 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398578002367 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 398578002368 ligand binding site [chemical binding]; other site 398578002369 flexible hinge region; other site 398578002370 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 398578002371 non-specific DNA interactions [nucleotide binding]; other site 398578002372 DNA binding site [nucleotide binding] 398578002373 sequence specific DNA binding site [nucleotide binding]; other site 398578002374 putative cAMP binding site [chemical binding]; other site 398578002375 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 398578002376 G1 box; other site 398578002377 GTP/Mg2+ binding site [chemical binding]; other site 398578002378 G2 box; other site 398578002379 Switch I region; other site 398578002380 G3 box; other site 398578002381 Switch II region; other site 398578002382 G4 box; other site 398578002383 G5 box; other site 398578002384 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578002385 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578002386 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 398578002387 dimerization interface [polypeptide binding]; other site 398578002388 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578002389 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 398578002390 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 398578002391 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 398578002392 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 398578002393 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 398578002394 DNA interaction; other site 398578002395 Metal-binding active site; metal-binding site 398578002396 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 398578002397 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398578002398 TM-ABC transporter signature motif; other site 398578002399 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 398578002400 TM-ABC transporter signature motif; other site 398578002401 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398578002402 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 398578002403 Walker A/P-loop; other site 398578002404 ATP binding site [chemical binding]; other site 398578002405 Q-loop/lid; other site 398578002406 ABC transporter signature motif; other site 398578002407 Walker B; other site 398578002408 D-loop; other site 398578002409 H-loop/switch region; other site 398578002410 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 398578002411 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 398578002412 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 398578002413 ligand binding site [chemical binding]; other site 398578002414 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398578002415 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398578002416 DNA binding site [nucleotide binding] 398578002417 domain linker motif; other site 398578002418 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 398578002419 dimerization interface [polypeptide binding]; other site 398578002420 ligand binding site [chemical binding]; other site 398578002421 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578002422 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578002423 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 398578002424 dimerization interface [polypeptide binding]; other site 398578002425 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 398578002426 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 398578002427 phosphate binding site [ion binding]; other site 398578002428 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578002429 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 398578002430 Uncharacterized conserved protein [Function unknown]; Region: COG2128 398578002431 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578002432 tricarballylate utilization protein B; Provisional; Region: PRK15033 398578002433 tricarballylate dehydrogenase; Validated; Region: PRK08274 398578002434 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 398578002435 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578002436 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 398578002437 putative dimerization interface [polypeptide binding]; other site 398578002438 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398578002439 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 398578002440 Bacterial transcriptional regulator; Region: IclR; pfam01614 398578002441 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578002442 acyl-CoA synthetase; Validated; Region: PRK06188 398578002443 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578002444 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 398578002445 acyl-activating enzyme (AAE) consensus motif; other site 398578002446 acyl-activating enzyme (AAE) consensus motif; other site 398578002447 putative AMP binding site [chemical binding]; other site 398578002448 putative active site [active] 398578002449 putative CoA binding site [chemical binding]; other site 398578002450 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 398578002451 active site 398578002452 oxalacetate binding site [chemical binding]; other site 398578002453 citrylCoA binding site [chemical binding]; other site 398578002454 coenzyme A binding site [chemical binding]; other site 398578002455 catalytic triad [active] 398578002456 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398578002457 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398578002458 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578002459 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 398578002460 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 398578002461 substrate binding site [chemical binding]; other site 398578002462 oxyanion hole (OAH) forming residues; other site 398578002463 trimer interface [polypeptide binding]; other site 398578002464 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578002465 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578002466 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 398578002467 putative dimerization interface [polypeptide binding]; other site 398578002468 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 398578002469 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 398578002470 Ligand Binding Site [chemical binding]; other site 398578002471 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 398578002472 Beta-lactamase; Region: Beta-lactamase; pfam00144 398578002473 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 398578002474 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 398578002475 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 398578002476 ATP binding site [chemical binding]; other site 398578002477 Mg2+ binding site [ion binding]; other site 398578002478 G-X-G motif; other site 398578002479 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578002480 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578002481 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 398578002482 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 398578002483 NAD(P) binding site [chemical binding]; other site 398578002484 catalytic residues [active] 398578002485 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578002486 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 398578002487 acyl-activating enzyme (AAE) consensus motif; other site 398578002488 AMP binding site [chemical binding]; other site 398578002489 active site 398578002490 CoA binding site [chemical binding]; other site 398578002491 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 398578002492 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 398578002493 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 398578002494 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 398578002495 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 398578002496 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 398578002497 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 398578002498 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 398578002499 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 398578002500 FAD binding pocket [chemical binding]; other site 398578002501 FAD binding motif [chemical binding]; other site 398578002502 phosphate binding motif [ion binding]; other site 398578002503 beta-alpha-beta structure motif; other site 398578002504 NAD(p) ribose binding residues [chemical binding]; other site 398578002505 NAD binding pocket [chemical binding]; other site 398578002506 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 398578002507 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 398578002508 catalytic loop [active] 398578002509 iron binding site [ion binding]; other site 398578002510 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 398578002511 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 398578002512 Sulfate transporter family; Region: Sulfate_transp; pfam00916 398578002513 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 398578002514 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 398578002515 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 398578002516 dimer interface [polypeptide binding]; other site 398578002517 ssDNA binding site [nucleotide binding]; other site 398578002518 tetramer (dimer of dimers) interface [polypeptide binding]; other site 398578002519 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398578002520 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 398578002521 putative substrate translocation pore; other site 398578002522 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 398578002523 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 398578002524 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 398578002525 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 398578002526 hydroxyglutarate oxidase; Provisional; Region: PRK11728 398578002527 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398578002528 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 398578002529 active site 398578002530 Zn binding site [ion binding]; other site 398578002531 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578002532 cell density-dependent motility repressor; Provisional; Region: PRK10082 398578002533 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578002534 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 398578002535 dimerization interface [polypeptide binding]; other site 398578002536 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 398578002537 active site 398578002538 dimer interface [polypeptide binding]; other site 398578002539 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 398578002540 EamA-like transporter family; Region: EamA; pfam00892 398578002541 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 398578002542 Phosphoglycerate kinase; Region: PGK; pfam00162 398578002543 substrate binding site [chemical binding]; other site 398578002544 hinge regions; other site 398578002545 ADP binding site [chemical binding]; other site 398578002546 catalytic site [active] 398578002547 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 398578002548 AzlC protein; Region: AzlC; pfam03591 398578002549 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 398578002550 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 398578002551 putative active site [active] 398578002552 substrate binding site [chemical binding]; other site 398578002553 putative cosubstrate binding site; other site 398578002554 catalytic site [active] 398578002555 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 398578002556 substrate binding site [chemical binding]; other site 398578002557 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 398578002558 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 398578002559 active site 398578002560 catalytic residues [active] 398578002561 metal binding site [ion binding]; metal-binding site 398578002562 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398578002563 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 398578002564 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 398578002565 DNA protecting protein DprA; Region: dprA; TIGR00732 398578002566 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 398578002567 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 398578002568 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 398578002569 Protein export membrane protein; Region: SecD_SecF; pfam02355 398578002570 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 398578002571 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 398578002572 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 398578002573 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 398578002574 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 398578002575 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 398578002576 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 398578002577 dimer interface [polypeptide binding]; other site 398578002578 PYR/PP interface [polypeptide binding]; other site 398578002579 TPP binding site [chemical binding]; other site 398578002580 substrate binding site [chemical binding]; other site 398578002581 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 398578002582 TPP-binding site [chemical binding]; other site 398578002583 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 398578002584 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398578002585 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 398578002586 putative DNA binding site [nucleotide binding]; other site 398578002587 putative Zn2+ binding site [ion binding]; other site 398578002588 AsnC family; Region: AsnC_trans_reg; pfam01037 398578002589 Transmembrane secretion effector; Region: MFS_3; pfam05977 398578002590 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 398578002591 putative substrate translocation pore; other site 398578002592 MltA specific insert domain; Region: MltA; smart00925 398578002593 3D domain; Region: 3D; pfam06725 398578002594 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398578002595 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398578002596 ligand binding site [chemical binding]; other site 398578002597 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 398578002598 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 398578002599 dimer interface [polypeptide binding]; other site 398578002600 active site 398578002601 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398578002602 substrate binding site [chemical binding]; other site 398578002603 catalytic residue [active] 398578002604 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 398578002605 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 398578002606 active site 398578002607 phosphorylation site [posttranslational modification] 398578002608 intermolecular recognition site; other site 398578002609 dimerization interface [polypeptide binding]; other site 398578002610 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 398578002611 DNA binding residues [nucleotide binding] 398578002612 dimerization interface [polypeptide binding]; other site 398578002613 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 398578002614 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 398578002615 putative active site [active] 398578002616 heme pocket [chemical binding]; other site 398578002617 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 398578002618 ATP binding site [chemical binding]; other site 398578002619 Mg2+ binding site [ion binding]; other site 398578002620 G-X-G motif; other site 398578002621 nitrilase; Region: PLN02798 398578002622 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 398578002623 putative active site [active] 398578002624 catalytic triad [active] 398578002625 dimer interface [polypeptide binding]; other site 398578002626 TIGR02099 family protein; Region: TIGR02099 398578002627 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 398578002628 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 398578002629 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 398578002630 metal binding triad; other site 398578002631 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 398578002632 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 398578002633 metal binding triad; other site 398578002634 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 398578002635 putative glutathione S-transferase; Provisional; Region: PRK10357 398578002636 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398578002637 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 398578002638 dimer interface [polypeptide binding]; other site 398578002639 N-terminal domain interface [polypeptide binding]; other site 398578002640 adenylosuccinate lyase; Provisional; Region: PRK09285 398578002641 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 398578002642 tetramer interface [polypeptide binding]; other site 398578002643 active site 398578002644 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 398578002645 YaeQ protein; Region: YaeQ; pfam07152 398578002646 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 398578002647 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 398578002648 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 398578002649 Membrane protein of unknown function; Region: DUF360; pfam04020 398578002650 Peptidase family M48; Region: Peptidase_M48; pfam01435 398578002651 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 398578002652 trimer interface [polypeptide binding]; other site 398578002653 dimer interface [polypeptide binding]; other site 398578002654 putative active site [active] 398578002655 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 398578002656 TPR motif; other site 398578002657 binding surface 398578002658 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 398578002659 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 398578002660 TPR motif; other site 398578002661 binding surface 398578002662 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 398578002663 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 398578002664 phosphopeptide binding site; other site 398578002665 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 398578002666 active site 398578002667 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 398578002668 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 398578002669 CoA binding domain; Region: CoA_binding; smart00881 398578002670 CoA-ligase; Region: Ligase_CoA; pfam00549 398578002671 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 398578002672 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 398578002673 CoA-ligase; Region: Ligase_CoA; pfam00549 398578002674 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 398578002675 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 398578002676 aromatic amino acid exporter; Provisional; Region: PRK11689 398578002677 EamA-like transporter family; Region: EamA; pfam00892 398578002678 RecX family; Region: RecX; cl00936 398578002679 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 398578002680 hexamer interface [polypeptide binding]; other site 398578002681 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 398578002682 Walker A motif; other site 398578002683 ATP binding site [chemical binding]; other site 398578002684 Walker B motif; other site 398578002685 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398578002686 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 398578002687 active site 398578002688 phosphorylation site [posttranslational modification] 398578002689 intermolecular recognition site; other site 398578002690 dimerization interface [polypeptide binding]; other site 398578002691 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 398578002692 DNA binding site [nucleotide binding] 398578002693 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 398578002694 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398578002695 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 398578002696 dimer interface [polypeptide binding]; other site 398578002697 phosphorylation site [posttranslational modification] 398578002698 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 398578002699 ATP binding site [chemical binding]; other site 398578002700 Mg2+ binding site [ion binding]; other site 398578002701 G-X-G motif; other site 398578002702 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398578002703 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578002704 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 398578002705 dimerization interface [polypeptide binding]; other site 398578002706 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 398578002707 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 398578002708 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 398578002709 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 398578002710 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 398578002711 Proteins containing SET domain [General function prediction only]; Region: COG2940 398578002712 SET domain; Region: SET; pfam00856 398578002713 DNA topoisomerase III; Validated; Region: PRK08173 398578002714 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 398578002715 active site 398578002716 putative interdomain interaction site [polypeptide binding]; other site 398578002717 putative metal-binding site [ion binding]; other site 398578002718 putative nucleotide binding site [chemical binding]; other site 398578002719 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 398578002720 domain I; other site 398578002721 DNA binding groove [nucleotide binding] 398578002722 phosphate binding site [ion binding]; other site 398578002723 domain II; other site 398578002724 domain III; other site 398578002725 nucleotide binding site [chemical binding]; other site 398578002726 catalytic site [active] 398578002727 domain IV; other site 398578002728 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 398578002729 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 398578002730 SWI complex, BAF60b domains; Region: SWIB; smart00151 398578002731 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 398578002732 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 398578002733 Winged helix-turn helix; Region: HTH_29; pfam13551 398578002734 Homeodomain-like domain; Region: HTH_23; cl17451 398578002735 Integrase core domain; Region: rve; pfam00665 398578002736 Integrase core domain; Region: rve_3; pfam13683 398578002737 Transglycosylase; Region: Transgly; pfam00912 398578002738 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 398578002739 Ferritin-like domain; Region: Ferritin; pfam00210 398578002740 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 398578002741 dinuclear metal binding motif [ion binding]; other site 398578002742 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 398578002743 catalytic residues [active] 398578002744 dimer interface [polypeptide binding]; other site 398578002745 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 398578002746 active site 398578002747 homotetramer interface [polypeptide binding]; other site 398578002748 homodimer interface [polypeptide binding]; other site 398578002749 RDD family; Region: RDD; pfam06271 398578002750 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578002751 AAA domain; Region: AAA_23; pfam13476 398578002752 Walker A/P-loop; other site 398578002753 ATP binding site [chemical binding]; other site 398578002754 Q-loop/lid; other site 398578002755 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578002756 ABC transporter signature motif; other site 398578002757 Walker B; other site 398578002758 D-loop; other site 398578002759 H-loop/switch region; other site 398578002760 exonuclease subunit SbcD; Provisional; Region: PRK10966 398578002761 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 398578002762 active site 398578002763 metal binding site [ion binding]; metal-binding site 398578002764 DNA binding site [nucleotide binding] 398578002765 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 398578002766 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398578002767 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 398578002768 N-acetylmuramoyl-L-alanine amidase; Region: Amidase_2; pfam01510 398578002769 Methyltransferase domain; Region: Methyltransf_23; pfam13489 398578002770 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 398578002771 S-adenosylmethionine binding site [chemical binding]; other site 398578002772 Uncharacterized conserved protein [Function unknown]; Region: COG3148 398578002773 Acyltransferase family; Region: Acyl_transf_3; pfam01757 398578002774 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 398578002775 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09775 398578002776 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 398578002777 putative DNA binding site [nucleotide binding]; other site 398578002778 HipA-like N-terminal domain; Region: HipA_N; pfam07805 398578002779 HipA-like C-terminal domain; Region: HipA_C; pfam07804 398578002780 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398578002781 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 398578002782 trimer interface [polypeptide binding]; other site 398578002783 eyelet of channel; other site 398578002784 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578002785 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398578002786 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 398578002787 C-terminal domain interface [polypeptide binding]; other site 398578002788 GSH binding site (G-site) [chemical binding]; other site 398578002789 dimer interface [polypeptide binding]; other site 398578002790 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 398578002791 dimer interface [polypeptide binding]; other site 398578002792 N-terminal domain interface [polypeptide binding]; other site 398578002793 Pirin-related protein [General function prediction only]; Region: COG1741 398578002794 Pirin; Region: Pirin; pfam02678 398578002795 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 398578002796 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 398578002797 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 398578002798 tetramer interface [polypeptide binding]; other site 398578002799 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578002800 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578002801 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578002802 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 398578002803 dimerization interface [polypeptide binding]; other site 398578002804 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 398578002805 The B subunit of unknown Class III extradiol dioxygenases with similarity to Protocatechuate 4,5-dioxygenase; Region: PCA_45_Doxase_B_like_1; cd07949 398578002806 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 398578002807 putative active site [active] 398578002808 Fe(II) binding site [ion binding]; other site 398578002809 putative dimer interface [polypeptide binding]; other site 398578002810 putative tetramer interface [polypeptide binding]; other site 398578002811 The A subunit of Uncharacterized proteins with similarity to Protocatechuate 4,5-dioxygenase (LigAB); Region: LigA_like_1; cd07925 398578002812 putative dimer interface [polypeptide binding]; other site 398578002813 putative tetramer interface [polypeptide binding]; other site 398578002814 putative active site [active] 398578002815 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578002816 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578002817 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 398578002818 substrate binding pocket [chemical binding]; other site 398578002819 dimerization interface [polypeptide binding]; other site 398578002820 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 398578002821 Peptidase C26; Region: Peptidase_C26; pfam07722 398578002822 catalytic triad [active] 398578002823 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cl00250 398578002824 30S subunit binding site; other site 398578002825 Pirin; Region: Pirin; pfam02678 398578002826 Pirin-related protein [General function prediction only]; Region: COG1741 398578002827 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 398578002828 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 398578002829 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 398578002830 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 398578002831 dimerization interface [polypeptide binding]; other site 398578002832 putative DNA binding site [nucleotide binding]; other site 398578002833 putative Zn2+ binding site [ion binding]; other site 398578002834 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 398578002835 active site residue [active] 398578002836 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 398578002837 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 398578002838 proline aminopeptidase P II; Provisional; Region: PRK10879 398578002839 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 398578002840 active site 398578002841 TIGR03118 family protein; Region: PEPCTERM_chp_1 398578002842 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 398578002843 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 398578002844 acyl-activating enzyme (AAE) consensus motif; other site 398578002845 putative AMP binding site [chemical binding]; other site 398578002846 putative active site [active] 398578002847 putative CoA binding site [chemical binding]; other site 398578002848 Putative cyclase; Region: Cyclase; pfam04199 398578002849 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 398578002850 pyruvate kinase; Provisional; Region: PRK05826 398578002851 domain interfaces; other site 398578002852 active site 398578002853 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 398578002854 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 398578002855 active site 398578002856 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 398578002857 active site 398578002858 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398578002859 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 398578002860 active site 398578002861 phosphorylation site [posttranslational modification] 398578002862 intermolecular recognition site; other site 398578002863 dimerization interface [polypeptide binding]; other site 398578002864 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 398578002865 DNA binding site [nucleotide binding] 398578002866 sensor protein BasS/PmrB; Provisional; Region: PRK10755 398578002867 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 398578002868 Mg2+ binding site [ion binding]; other site 398578002869 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 398578002870 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 398578002871 intersubunit interface [polypeptide binding]; other site 398578002872 active site 398578002873 zinc binding site [ion binding]; other site 398578002874 Na+ binding site [ion binding]; other site 398578002875 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 398578002876 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 398578002877 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 398578002878 Substrate binding site; other site 398578002879 metal-binding site 398578002880 transketolase; Reviewed; Region: PRK12753 398578002881 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 398578002882 TPP-binding site [chemical binding]; other site 398578002883 dimer interface [polypeptide binding]; other site 398578002884 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 398578002885 PYR/PP interface [polypeptide binding]; other site 398578002886 dimer interface [polypeptide binding]; other site 398578002887 TPP binding site [chemical binding]; other site 398578002888 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398578002889 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 398578002890 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 398578002891 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 398578002892 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 398578002893 dimer interface [polypeptide binding]; other site 398578002894 putative tRNA-binding site [nucleotide binding]; other site 398578002895 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578002896 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 398578002897 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 398578002898 metal binding site [ion binding]; metal-binding site 398578002899 putative dimer interface [polypeptide binding]; other site 398578002900 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578002901 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578002902 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 398578002903 dimerization interface [polypeptide binding]; other site 398578002904 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 398578002905 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398578002906 active site 398578002907 catalytic tetrad [active] 398578002908 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 398578002909 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 398578002910 acyl-activating enzyme (AAE) consensus motif; other site 398578002911 putative AMP binding site [chemical binding]; other site 398578002912 putative active site [active] 398578002913 putative CoA binding site [chemical binding]; other site 398578002914 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398578002915 AsnC family; Region: AsnC_trans_reg; pfam01037 398578002916 Cupin domain; Region: Cupin_2; pfam07883 398578002917 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 398578002918 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398578002919 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398578002920 Bacterial transcriptional regulator; Region: IclR; pfam01614 398578002921 L-aspartate dehydrogenase; Provisional; Region: PRK13303 398578002922 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 398578002923 Domain of unknown function DUF108; Region: DUF108; pfam01958 398578002924 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 398578002925 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 398578002926 Winged helix-turn helix; Region: HTH_29; pfam13551 398578002927 Homeodomain-like domain; Region: HTH_23; cl17451 398578002928 Integrase core domain; Region: rve; pfam00665 398578002929 Integrase core domain; Region: rve_3; pfam13683 398578002930 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 398578002931 short chain dehydrogenase; Provisional; Region: PRK12939 398578002932 classical (c) SDRs; Region: SDR_c; cd05233 398578002933 NAD(P) binding site [chemical binding]; other site 398578002934 active site 398578002935 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398578002936 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398578002937 Bacterial transcriptional regulator; Region: IclR; pfam01614 398578002938 short chain dehydrogenase; Provisional; Region: PRK07062 398578002939 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 398578002940 putative NAD(P) binding site [chemical binding]; other site 398578002941 putative active site [active] 398578002942 hypothetical protein; Provisional; Region: PRK07064 398578002943 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398578002944 PYR/PP interface [polypeptide binding]; other site 398578002945 dimer interface [polypeptide binding]; other site 398578002946 TPP binding site [chemical binding]; other site 398578002947 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 398578002948 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 398578002949 TPP-binding site [chemical binding]; other site 398578002950 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398578002951 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 398578002952 NAD(P) binding site [chemical binding]; other site 398578002953 catalytic residues [active] 398578002954 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 398578002955 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398578002956 putative active site [active] 398578002957 putative metal binding site [ion binding]; other site 398578002958 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578002959 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 398578002960 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 398578002961 [2Fe-2S] cluster binding site [ion binding]; other site 398578002962 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 398578002963 hydrophobic ligand binding site; other site 398578002964 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 398578002965 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 398578002966 FMN-binding pocket [chemical binding]; other site 398578002967 flavin binding motif; other site 398578002968 phosphate binding motif [ion binding]; other site 398578002969 beta-alpha-beta structure motif; other site 398578002970 NAD binding pocket [chemical binding]; other site 398578002971 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 398578002972 catalytic loop [active] 398578002973 iron binding site [ion binding]; other site 398578002974 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398578002975 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 398578002976 trimer interface [polypeptide binding]; other site 398578002977 eyelet of channel; other site 398578002978 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 398578002979 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398578002980 putative substrate translocation pore; other site 398578002981 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578002982 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 398578002983 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 398578002984 dimerization interface [polypeptide binding]; other site 398578002985 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 398578002986 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 398578002987 motif II; other site 398578002988 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578002989 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 398578002990 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 398578002991 dimer interface [polypeptide binding]; other site 398578002992 active site 398578002993 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398578002994 substrate binding site [chemical binding]; other site 398578002995 catalytic residue [active] 398578002996 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 398578002997 homotrimer interaction site [polypeptide binding]; other site 398578002998 putative active site [active] 398578002999 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 398578003000 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 398578003001 Cl binding site [ion binding]; other site 398578003002 oligomer interface [polypeptide binding]; other site 398578003003 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 398578003004 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 398578003005 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398578003006 Coenzyme A binding pocket [chemical binding]; other site 398578003007 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 398578003008 Glycoprotease family; Region: Peptidase_M22; pfam00814 398578003009 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 398578003010 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 398578003011 active site 398578003012 catalytic triad [active] 398578003013 oxyanion hole [active] 398578003014 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 398578003015 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 398578003016 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 398578003017 tetrameric interface [polypeptide binding]; other site 398578003018 NAD binding site [chemical binding]; other site 398578003019 catalytic residues [active] 398578003020 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578003021 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578003022 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 398578003023 putative effector binding pocket; other site 398578003024 dimerization interface [polypeptide binding]; other site 398578003025 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 398578003026 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578003027 KduI/IolB family; Region: KduI; pfam04962 398578003028 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398578003029 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 398578003030 substrate binding site [chemical binding]; other site 398578003031 ATP binding site [chemical binding]; other site 398578003032 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 398578003033 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 398578003034 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 398578003035 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 398578003036 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 398578003037 putative active site [active] 398578003038 LabA_like proteins; Region: LabA_like; cd06167 398578003039 putative metal binding site [ion binding]; other site 398578003040 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 398578003041 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 398578003042 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 398578003043 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 398578003044 ATP-grasp domain; Region: ATP-grasp; pfam02222 398578003045 AIR carboxylase; Region: AIRC; cl00310 398578003046 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398578003047 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398578003048 Walker A/P-loop; other site 398578003049 ATP binding site [chemical binding]; other site 398578003050 Q-loop/lid; other site 398578003051 ABC transporter signature motif; other site 398578003052 Walker B; other site 398578003053 D-loop; other site 398578003054 H-loop/switch region; other site 398578003055 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 398578003056 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 398578003057 hypothetical protein; Provisional; Region: PRK09266 398578003058 homodimer interface [polypeptide binding]; other site 398578003059 substrate-cofactor binding pocket; other site 398578003060 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578003061 catalytic residue [active] 398578003062 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398578003063 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578003064 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 398578003065 dimerization interface [polypeptide binding]; other site 398578003066 substrate binding pocket [chemical binding]; other site 398578003067 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578003068 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578003069 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 398578003070 dimerization interface [polypeptide binding]; other site 398578003071 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 398578003072 intracellular protease, PfpI family; Region: PfpI; TIGR01382 398578003073 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 398578003074 conserved cys residue [active] 398578003075 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 398578003076 ATP binding site [chemical binding]; other site 398578003077 active site 398578003078 substrate binding site [chemical binding]; other site 398578003079 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 398578003080 30S subunit binding site; other site 398578003081 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 398578003082 active site 398578003083 phosphorylation site [posttranslational modification] 398578003084 HPr kinase/phosphorylase; Provisional; Region: PRK05428 398578003085 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 398578003086 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 398578003087 Hpr binding site; other site 398578003088 active site 398578003089 homohexamer subunit interaction site [polypeptide binding]; other site 398578003090 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 398578003091 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 398578003092 N-terminal plug; other site 398578003093 ligand-binding site [chemical binding]; other site 398578003094 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 398578003095 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 398578003096 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 398578003097 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 398578003098 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 398578003099 putative ligand binding residues [chemical binding]; other site 398578003100 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 398578003101 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 398578003102 ABC-ATPase subunit interface; other site 398578003103 dimer interface [polypeptide binding]; other site 398578003104 putative PBP binding regions; other site 398578003105 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 398578003106 ABC-ATPase subunit interface; other site 398578003107 dimer interface [polypeptide binding]; other site 398578003108 putative PBP binding regions; other site 398578003109 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 398578003110 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 398578003111 Walker A/P-loop; other site 398578003112 ATP binding site [chemical binding]; other site 398578003113 Q-loop/lid; other site 398578003114 ABC transporter signature motif; other site 398578003115 Walker B; other site 398578003116 D-loop; other site 398578003117 H-loop/switch region; other site 398578003118 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 398578003119 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 398578003120 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 398578003121 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 398578003122 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398578003123 Zn2+ binding site [ion binding]; other site 398578003124 Mg2+ binding site [ion binding]; other site 398578003125 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 398578003126 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 398578003127 generic binding surface II; other site 398578003128 ssDNA binding site; other site 398578003129 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 398578003130 ATP binding site [chemical binding]; other site 398578003131 putative Mg++ binding site [ion binding]; other site 398578003132 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 398578003133 nucleotide binding region [chemical binding]; other site 398578003134 ATP-binding site [chemical binding]; other site 398578003135 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 398578003136 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 398578003137 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578003138 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 398578003139 dimerization interface [polypeptide binding]; other site 398578003140 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 398578003141 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 398578003142 dimerization interface [polypeptide binding]; other site 398578003143 DPS ferroxidase diiron center [ion binding]; other site 398578003144 ion pore; other site 398578003145 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 398578003146 active site 398578003147 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 398578003148 UbiA prenyltransferase family; Region: UbiA; pfam01040 398578003149 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 398578003150 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 398578003151 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 398578003152 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578003153 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 398578003154 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398578003155 PYR/PP interface [polypeptide binding]; other site 398578003156 dimer interface [polypeptide binding]; other site 398578003157 TPP binding site [chemical binding]; other site 398578003158 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 398578003159 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 398578003160 TPP-binding site [chemical binding]; other site 398578003161 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398578003162 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 398578003163 DNA-binding site [nucleotide binding]; DNA binding site 398578003164 FCD domain; Region: FCD; pfam07729 398578003165 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 398578003166 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 398578003167 glycerol kinase; Provisional; Region: glpK; PRK00047 398578003168 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 398578003169 N- and C-terminal domain interface [polypeptide binding]; other site 398578003170 active site 398578003171 MgATP binding site [chemical binding]; other site 398578003172 catalytic site [active] 398578003173 metal binding site [ion binding]; metal-binding site 398578003174 glycerol binding site [chemical binding]; other site 398578003175 homotetramer interface [polypeptide binding]; other site 398578003176 homodimer interface [polypeptide binding]; other site 398578003177 FBP binding site [chemical binding]; other site 398578003178 protein IIAGlc interface [polypeptide binding]; other site 398578003179 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 398578003180 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 398578003181 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 398578003182 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 398578003183 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 398578003184 Walker A/P-loop; other site 398578003185 ATP binding site [chemical binding]; other site 398578003186 Q-loop/lid; other site 398578003187 ABC transporter signature motif; other site 398578003188 Walker B; other site 398578003189 D-loop; other site 398578003190 H-loop/switch region; other site 398578003191 TOBE domain; Region: TOBE_2; pfam08402 398578003192 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 398578003193 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 398578003194 Walker A/P-loop; other site 398578003195 ATP binding site [chemical binding]; other site 398578003196 Q-loop/lid; other site 398578003197 ABC transporter signature motif; other site 398578003198 Walker B; other site 398578003199 D-loop; other site 398578003200 H-loop/switch region; other site 398578003201 TOBE domain; Region: TOBE_2; pfam08402 398578003202 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 398578003203 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 398578003204 putative PBP binding loops; other site 398578003205 dimer interface [polypeptide binding]; other site 398578003206 ABC-ATPase subunit interface; other site 398578003207 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 398578003208 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 398578003209 dimer interface [polypeptide binding]; other site 398578003210 conserved gate region; other site 398578003211 putative PBP binding loops; other site 398578003212 ABC-ATPase subunit interface; other site 398578003213 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 398578003214 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 398578003215 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 398578003216 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 398578003217 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 398578003218 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 398578003219 RNA binding site [nucleotide binding]; other site 398578003220 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 398578003221 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 398578003222 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 398578003223 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 398578003224 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 398578003225 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 398578003226 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 398578003227 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 398578003228 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 398578003229 5S rRNA interface [nucleotide binding]; other site 398578003230 23S rRNA interface [nucleotide binding]; other site 398578003231 L5 interface [polypeptide binding]; other site 398578003232 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 398578003233 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 398578003234 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 398578003235 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 398578003236 23S rRNA binding site [nucleotide binding]; other site 398578003237 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 398578003238 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 398578003239 SecY translocase; Region: SecY; pfam00344 398578003240 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 398578003241 30S ribosomal protein S13; Region: bact_S13; TIGR03631 398578003242 30S ribosomal protein S11; Validated; Region: PRK05309 398578003243 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 398578003244 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 398578003245 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 398578003246 RNA binding surface [nucleotide binding]; other site 398578003247 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 398578003248 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 398578003249 alphaNTD homodimer interface [polypeptide binding]; other site 398578003250 alphaNTD - beta interaction site [polypeptide binding]; other site 398578003251 alphaNTD - beta' interaction site [polypeptide binding]; other site 398578003252 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 398578003253 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 398578003254 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 398578003255 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 398578003256 transmembrane helices; other site 398578003257 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 398578003258 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 398578003259 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 398578003260 putative FMN-dependent luciferase-like monooxygenase, KPN_01858 family; Region: LLM_KPN_01858; TIGR04027 398578003261 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 398578003262 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 398578003263 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398578003264 Walker A/P-loop; other site 398578003265 ATP binding site [chemical binding]; other site 398578003266 Q-loop/lid; other site 398578003267 ABC transporter signature motif; other site 398578003268 Walker B; other site 398578003269 D-loop; other site 398578003270 H-loop/switch region; other site 398578003271 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398578003272 Walker A/P-loop; other site 398578003273 ATP binding site [chemical binding]; other site 398578003274 Q-loop/lid; other site 398578003275 ABC transporter signature motif; other site 398578003276 Walker B; other site 398578003277 D-loop; other site 398578003278 H-loop/switch region; other site 398578003279 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 398578003280 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 398578003281 putative PBP binding loops; other site 398578003282 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 398578003283 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 398578003284 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 398578003285 conserved gate region; other site 398578003286 putative PBP binding loops; other site 398578003287 ABC-ATPase subunit interface; other site 398578003288 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 398578003289 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_15; cd08492 398578003290 OsmC-like protein; Region: OsmC; pfam02566 398578003291 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 398578003292 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 398578003293 putative chaperone; Provisional; Region: PRK11678 398578003294 nucleotide binding site [chemical binding]; other site 398578003295 putative NEF/HSP70 interaction site [polypeptide binding]; other site 398578003296 SBD interface [polypeptide binding]; other site 398578003297 Predicted methyltransferases [General function prediction only]; Region: COG0313 398578003298 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 398578003299 putative SAM binding site [chemical binding]; other site 398578003300 putative homodimer interface [polypeptide binding]; other site 398578003301 hypothetical protein; Provisional; Region: PRK14673 398578003302 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 398578003303 dimer interface [polypeptide binding]; other site 398578003304 active site 398578003305 BON domain; Region: BON; pfam04972 398578003306 BON domain; Region: BON; pfam04972 398578003307 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 398578003308 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 398578003309 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 398578003310 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 398578003311 Walker A motif; other site 398578003312 ATP binding site [chemical binding]; other site 398578003313 Walker B motif; other site 398578003314 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398578003315 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 398578003316 ligand binding site [chemical binding]; other site 398578003317 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 398578003318 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 398578003319 Walker A motif; other site 398578003320 ATP binding site [chemical binding]; other site 398578003321 Walker B motif; other site 398578003322 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 398578003323 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398578003324 catalytic residue [active] 398578003325 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398578003326 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 398578003327 putative ligand binding site [chemical binding]; other site 398578003328 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578003329 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578003330 acyl-CoA synthetase; Validated; Region: PRK06178 398578003331 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578003332 acyl-activating enzyme (AAE) consensus motif; other site 398578003333 AMP binding site [chemical binding]; other site 398578003334 active site 398578003335 CoA binding site [chemical binding]; other site 398578003336 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 398578003337 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398578003338 ATP-grasp domain; Region: ATP-grasp_4; cl17255 398578003339 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 398578003340 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 398578003341 carboxyltransferase (CT) interaction site; other site 398578003342 biotinylation site [posttranslational modification]; other site 398578003343 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 398578003344 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 398578003345 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 398578003346 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 398578003347 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398578003348 catalytic residue [active] 398578003349 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 398578003350 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 398578003351 Fic family protein [Function unknown]; Region: COG3177 398578003352 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 398578003353 Fic/DOC family; Region: Fic; pfam02661 398578003354 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 398578003355 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 398578003356 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 398578003357 Walker A motif; other site 398578003358 ATP binding site [chemical binding]; other site 398578003359 Walker B motif; other site 398578003360 arginine finger; other site 398578003361 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 398578003362 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 398578003363 heme-binding site [chemical binding]; other site 398578003364 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 398578003365 FAD binding pocket [chemical binding]; other site 398578003366 FAD binding motif [chemical binding]; other site 398578003367 phosphate binding motif [ion binding]; other site 398578003368 beta-alpha-beta structure motif; other site 398578003369 NAD binding pocket [chemical binding]; other site 398578003370 Heme binding pocket [chemical binding]; other site 398578003371 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 398578003372 PAS domain; Region: PAS_9; pfam13426 398578003373 putative active site [active] 398578003374 heme pocket [chemical binding]; other site 398578003375 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578003376 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578003377 metal binding site [ion binding]; metal-binding site 398578003378 active site 398578003379 I-site; other site 398578003380 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 398578003381 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 398578003382 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 398578003383 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 398578003384 putative active site [active] 398578003385 putative substrate binding site [chemical binding]; other site 398578003386 putative cosubstrate binding site; other site 398578003387 catalytic site [active] 398578003388 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398578003389 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578003390 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 398578003391 dimerization interface [polypeptide binding]; other site 398578003392 substrate binding pocket [chemical binding]; other site 398578003393 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 398578003394 FAD binding domain; Region: FAD_binding_4; pfam01565 398578003395 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 398578003396 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 398578003397 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578003398 Outer membrane efflux protein; Region: OEP; pfam02321 398578003399 Outer membrane efflux protein; Region: OEP; pfam02321 398578003400 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 398578003401 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 398578003402 active site 398578003403 phosphorylation site [posttranslational modification] 398578003404 intermolecular recognition site; other site 398578003405 dimerization interface [polypeptide binding]; other site 398578003406 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 398578003407 DNA binding site [nucleotide binding] 398578003408 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 398578003409 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 398578003410 dimerization interface [polypeptide binding]; other site 398578003411 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 398578003412 dimer interface [polypeptide binding]; other site 398578003413 phosphorylation site [posttranslational modification] 398578003414 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 398578003415 ATP binding site [chemical binding]; other site 398578003416 G-X-G motif; other site 398578003417 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 398578003418 CoenzymeA binding site [chemical binding]; other site 398578003419 subunit interaction site [polypeptide binding]; other site 398578003420 PHB binding site; other site 398578003421 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 398578003422 carboxyltransferase (CT) interaction site; other site 398578003423 biotinylation site [posttranslational modification]; other site 398578003424 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK06111 398578003425 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398578003426 ATP-grasp domain; Region: ATP-grasp_4; cl17255 398578003427 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 398578003428 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 398578003429 CoA binding domain; Region: CoA_binding_2; pfam13380 398578003430 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 398578003431 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 398578003432 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578003433 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 398578003434 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 398578003435 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 398578003436 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 398578003437 Walker A motif; other site 398578003438 ATP binding site [chemical binding]; other site 398578003439 Walker B motif; other site 398578003440 arginine finger; other site 398578003441 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398578003442 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 398578003443 Protein of unknown function (DUF445); Region: DUF445; pfam04286 398578003444 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 398578003445 Protein of unknown function, DUF399; Region: DUF399; pfam04187 398578003446 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 398578003447 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 398578003448 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 398578003449 dimerization interface [polypeptide binding]; other site 398578003450 GAF domain; Region: GAF; pfam01590 398578003451 Histidine kinase; Region: HisKA_3; pfam07730 398578003452 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 398578003453 ATP binding site [chemical binding]; other site 398578003454 Mg2+ binding site [ion binding]; other site 398578003455 G-X-G motif; other site 398578003456 transcriptional regulator NarL; Provisional; Region: PRK10651 398578003457 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 398578003458 active site 398578003459 phosphorylation site [posttranslational modification] 398578003460 intermolecular recognition site; other site 398578003461 dimerization interface [polypeptide binding]; other site 398578003462 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 398578003463 DNA binding residues [nucleotide binding] 398578003464 dimerization interface [polypeptide binding]; other site 398578003465 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 398578003466 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 398578003467 putative substrate translocation pore; other site 398578003468 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 398578003469 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 398578003470 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 398578003471 [4Fe-4S] binding site [ion binding]; other site 398578003472 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 398578003473 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 398578003474 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 398578003475 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 398578003476 molybdopterin cofactor binding site; other site 398578003477 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 398578003478 4Fe-4S binding domain; Region: Fer4; cl02805 398578003479 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 398578003480 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 398578003481 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 398578003482 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 398578003483 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 398578003484 active site clefts [active] 398578003485 zinc binding site [ion binding]; other site 398578003486 dimer interface [polypeptide binding]; other site 398578003487 ribonucleotide reductase-like protein; Provisional; Region: PRK06948 398578003488 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 398578003489 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 398578003490 active site 398578003491 dimer interface [polypeptide binding]; other site 398578003492 effector binding site; other site 398578003493 Hemerythrin-like domain; Region: Hr-like; cd12108 398578003494 Fe binding site [ion binding]; other site 398578003495 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 398578003496 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 398578003497 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 398578003498 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 398578003499 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398578003500 FAD binding domain; Region: FAD_binding_4; pfam01565 398578003501 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 398578003502 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398578003503 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 398578003504 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 398578003505 nucleotide binding site [chemical binding]; other site 398578003506 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 398578003507 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 398578003508 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 398578003509 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 398578003510 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398578003511 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398578003512 Bacterial transcriptional regulator; Region: IclR; pfam01614 398578003513 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 398578003514 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 398578003515 TraB family; Region: TraB; pfam01963 398578003516 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578003517 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 398578003518 ABC1 family; Region: ABC1; cl17513 398578003519 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 398578003520 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 398578003521 putative [4Fe-4S] binding site [ion binding]; other site 398578003522 putative molybdopterin cofactor binding site [chemical binding]; other site 398578003523 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 398578003524 putative molybdopterin cofactor binding site; other site 398578003525 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398578003526 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 398578003527 putative ligand binding site [chemical binding]; other site 398578003528 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 398578003529 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 398578003530 metal binding site [ion binding]; metal-binding site 398578003531 putative dimer interface [polypeptide binding]; other site 398578003532 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 398578003533 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 398578003534 Walker A/P-loop; other site 398578003535 ATP binding site [chemical binding]; other site 398578003536 Q-loop/lid; other site 398578003537 ABC transporter signature motif; other site 398578003538 Walker B; other site 398578003539 D-loop; other site 398578003540 H-loop/switch region; other site 398578003541 Acyl CoA binding protein; Region: ACBP; pfam00887 398578003542 acyl-CoA binding pocket [chemical binding]; other site 398578003543 CoA binding site [chemical binding]; other site 398578003544 oxidase reductase; Provisional; Region: PTZ00273 398578003545 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 398578003546 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 398578003547 NMT1/THI5 like; Region: NMT1; pfam09084 398578003548 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 398578003549 nucleoside/Zn binding site; other site 398578003550 dimer interface [polypeptide binding]; other site 398578003551 catalytic motif [active] 398578003552 NMT1/THI5 like; Region: NMT1; pfam09084 398578003553 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 398578003554 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 398578003555 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 398578003556 Walker A/P-loop; other site 398578003557 ATP binding site [chemical binding]; other site 398578003558 Q-loop/lid; other site 398578003559 ABC transporter signature motif; other site 398578003560 Walker B; other site 398578003561 D-loop; other site 398578003562 H-loop/switch region; other site 398578003563 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 398578003564 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 398578003565 dimer interface [polypeptide binding]; other site 398578003566 conserved gate region; other site 398578003567 putative PBP binding loops; other site 398578003568 ABC-ATPase subunit interface; other site 398578003569 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 398578003570 nucleoside/Zn binding site; other site 398578003571 dimer interface [polypeptide binding]; other site 398578003572 catalytic motif [active] 398578003573 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 398578003574 Sulfatase; Region: Sulfatase; pfam00884 398578003575 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398578003576 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 398578003577 active site 398578003578 phosphorylation site [posttranslational modification] 398578003579 intermolecular recognition site; other site 398578003580 dimerization interface [polypeptide binding]; other site 398578003581 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 398578003582 DNA binding site [nucleotide binding] 398578003583 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 398578003584 dimer interface [polypeptide binding]; other site 398578003585 phosphorylation site [posttranslational modification] 398578003586 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 398578003587 ATP binding site [chemical binding]; other site 398578003588 Mg2+ binding site [ion binding]; other site 398578003589 G-X-G motif; other site 398578003590 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 398578003591 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 398578003592 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 398578003593 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 398578003594 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 398578003595 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398578003596 active site 398578003597 catalytic tetrad [active] 398578003598 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578003599 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578003600 LysR substrate binding domain; Region: LysR_substrate; pfam03466 398578003601 dimerization interface [polypeptide binding]; other site 398578003602 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578003603 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 398578003604 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578003605 acyl-activating enzyme (AAE) consensus motif; other site 398578003606 active site 398578003607 AMP binding site [chemical binding]; other site 398578003608 CoA binding site [chemical binding]; other site 398578003609 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398578003610 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 398578003611 Walker A/P-loop; other site 398578003612 ATP binding site [chemical binding]; other site 398578003613 Q-loop/lid; other site 398578003614 ABC transporter signature motif; other site 398578003615 Walker B; other site 398578003616 D-loop; other site 398578003617 H-loop/switch region; other site 398578003618 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 398578003619 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398578003620 putative ligand binding site [chemical binding]; other site 398578003621 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 398578003622 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 398578003623 TM-ABC transporter signature motif; other site 398578003624 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398578003625 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 398578003626 TM-ABC transporter signature motif; other site 398578003627 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398578003628 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 398578003629 Walker A/P-loop; other site 398578003630 ATP binding site [chemical binding]; other site 398578003631 Q-loop/lid; other site 398578003632 ABC transporter signature motif; other site 398578003633 Walker B; other site 398578003634 D-loop; other site 398578003635 H-loop/switch region; other site 398578003636 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 398578003637 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578003638 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578003639 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 398578003640 acyl-activating enzyme (AAE) consensus motif; other site 398578003641 acyl-activating enzyme (AAE) consensus motif; other site 398578003642 putative AMP binding site [chemical binding]; other site 398578003643 putative active site [active] 398578003644 putative CoA binding site [chemical binding]; other site 398578003645 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398578003646 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 398578003647 ligand binding site [chemical binding]; other site 398578003648 flexible hinge region; other site 398578003649 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 398578003650 non-specific DNA interactions [nucleotide binding]; other site 398578003651 DNA binding site [nucleotide binding] 398578003652 sequence specific DNA binding site [nucleotide binding]; other site 398578003653 putative cAMP binding site [chemical binding]; other site 398578003654 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 398578003655 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 398578003656 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 398578003657 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398578003658 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398578003659 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578003660 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398578003661 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578003662 active site 398578003663 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398578003664 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398578003665 Bacterial transcriptional regulator; Region: IclR; pfam01614 398578003666 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 398578003667 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 398578003668 RNA binding surface [nucleotide binding]; other site 398578003669 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 398578003670 active site 398578003671 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 398578003672 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398578003673 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 398578003674 DNA binding residues [nucleotide binding] 398578003675 fec operon regulator FecR; Reviewed; Region: PRK09774 398578003676 FecR protein; Region: FecR; pfam04773 398578003677 Secretin and TonB N terminus short domain; Region: STN; smart00965 398578003678 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 398578003679 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 398578003680 N-terminal plug; other site 398578003681 ligand-binding site [chemical binding]; other site 398578003682 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 398578003683 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 398578003684 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 398578003685 N-terminal plug; other site 398578003686 ligand-binding site [chemical binding]; other site 398578003687 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 398578003688 amphipathic channel; other site 398578003689 Asn-Pro-Ala signature motifs; other site 398578003690 heat shock protein 90; Provisional; Region: PRK05218 398578003691 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 398578003692 ATP binding site [chemical binding]; other site 398578003693 Mg2+ binding site [ion binding]; other site 398578003694 G-X-G motif; other site 398578003695 Domain of unknown function DUF11; Region: DUF11; pfam01345 398578003696 Domain of unknown function DUF11; Region: DUF11; pfam01345 398578003697 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 398578003698 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 398578003699 G1 box; other site 398578003700 GTP/Mg2+ binding site [chemical binding]; other site 398578003701 G2 box; other site 398578003702 Switch I region; other site 398578003703 G3 box; other site 398578003704 Switch II region; other site 398578003705 G4 box; other site 398578003706 G5 box; other site 398578003707 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 398578003708 UreF; Region: UreF; pfam01730 398578003709 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 398578003710 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 398578003711 dimer interface [polypeptide binding]; other site 398578003712 catalytic residues [active] 398578003713 urease subunit alpha; Reviewed; Region: ureC; PRK13207 398578003714 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 398578003715 subunit interactions [polypeptide binding]; other site 398578003716 active site 398578003717 flap region; other site 398578003718 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 398578003719 gamma-beta subunit interface [polypeptide binding]; other site 398578003720 alpha-beta subunit interface [polypeptide binding]; other site 398578003721 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 398578003722 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 398578003723 alpha-gamma subunit interface [polypeptide binding]; other site 398578003724 beta-gamma subunit interface [polypeptide binding]; other site 398578003725 UreD urease accessory protein; Region: UreD; pfam01774 398578003726 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 398578003727 homotrimer interaction site [polypeptide binding]; other site 398578003728 putative active site [active] 398578003729 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 398578003730 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 398578003731 DNA binding residues [nucleotide binding] 398578003732 dimer interface [polypeptide binding]; other site 398578003733 [2Fe-2S] cluster binding site [ion binding]; other site 398578003734 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398578003735 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 398578003736 putative substrate translocation pore; other site 398578003737 Response regulator receiver domain; Region: Response_reg; pfam00072 398578003738 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 398578003739 active site 398578003740 phosphorylation site [posttranslational modification] 398578003741 intermolecular recognition site; other site 398578003742 dimerization interface [polypeptide binding]; other site 398578003743 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578003744 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578003745 metal binding site [ion binding]; metal-binding site 398578003746 active site 398578003747 I-site; other site 398578003748 serine/threonine protein kinase; Provisional; Region: PRK11768 398578003749 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 398578003750 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 398578003751 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 398578003752 Transcriptional regulators [Transcription]; Region: MarR; COG1846 398578003753 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 398578003754 putative Zn2+ binding site [ion binding]; other site 398578003755 putative DNA binding site [nucleotide binding]; other site 398578003756 enoyl-CoA hydratase; Provisional; Region: PRK06563 398578003757 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 398578003758 substrate binding site [chemical binding]; other site 398578003759 oxyanion hole (OAH) forming residues; other site 398578003760 trimer interface [polypeptide binding]; other site 398578003761 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 398578003762 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 398578003763 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398578003764 choline dehydrogenase; Validated; Region: PRK02106 398578003765 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398578003766 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578003767 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578003768 metal binding site [ion binding]; metal-binding site 398578003769 active site 398578003770 I-site; other site 398578003771 AMP nucleosidase; Provisional; Region: PRK08292 398578003772 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 398578003773 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 398578003774 PAS fold; Region: PAS_4; pfam08448 398578003775 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 398578003776 putative active site [active] 398578003777 heme pocket [chemical binding]; other site 398578003778 PAS domain S-box; Region: sensory_box; TIGR00229 398578003779 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 398578003780 putative active site [active] 398578003781 heme pocket [chemical binding]; other site 398578003782 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578003783 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578003784 metal binding site [ion binding]; metal-binding site 398578003785 active site 398578003786 I-site; other site 398578003787 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 398578003788 Domain of unknown function (DUF336); Region: DUF336; cl01249 398578003789 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 398578003790 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 398578003791 active site 398578003792 phosphorylation site [posttranslational modification] 398578003793 intermolecular recognition site; other site 398578003794 dimerization interface [polypeptide binding]; other site 398578003795 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 398578003796 DNA binding residues [nucleotide binding] 398578003797 dimerization interface [polypeptide binding]; other site 398578003798 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 398578003799 dimer interface [polypeptide binding]; other site 398578003800 phosphorylation site [posttranslational modification] 398578003801 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 398578003802 ATP binding site [chemical binding]; other site 398578003803 Mg2+ binding site [ion binding]; other site 398578003804 G-X-G motif; other site 398578003805 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 398578003806 Cation efflux family; Region: Cation_efflux; pfam01545 398578003807 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 398578003808 putative active site [active] 398578003809 dimerization interface [polypeptide binding]; other site 398578003810 putative tRNAtyr binding site [nucleotide binding]; other site 398578003811 hypothetical protein; Provisional; Region: PRK06156 398578003812 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 398578003813 metal binding site [ion binding]; metal-binding site 398578003814 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 398578003815 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 398578003816 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 398578003817 non-specific DNA binding site [nucleotide binding]; other site 398578003818 salt bridge; other site 398578003819 sequence-specific DNA binding site [nucleotide binding]; other site 398578003820 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 398578003821 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cd09735 398578003822 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cd09736 398578003823 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09737 398578003824 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09739 398578003825 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 398578003826 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578003827 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578003828 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 398578003829 dimerization interface [polypeptide binding]; other site 398578003830 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578003831 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398578003832 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398578003833 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 398578003834 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 398578003835 NADP binding site [chemical binding]; other site 398578003836 dimer interface [polypeptide binding]; other site 398578003837 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 398578003838 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 398578003839 PhoH-like protein; Region: PhoH; pfam02562 398578003840 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 398578003841 RuvA N terminal domain; Region: RuvA_N; pfam01330 398578003842 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 398578003843 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 398578003844 Walker A motif; other site 398578003845 ATP binding site [chemical binding]; other site 398578003846 Walker B motif; other site 398578003847 arginine finger; other site 398578003848 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 398578003849 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 398578003850 MgtC family; Region: MgtC; pfam02308 398578003851 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 398578003852 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 398578003853 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398578003854 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 398578003855 Soluble P-type ATPase [General function prediction only]; Region: COG4087 398578003856 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 398578003857 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 398578003858 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 398578003859 YhhN-like protein; Region: YhhN; pfam07947 398578003860 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578003861 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 398578003862 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 398578003863 catalytic core [active] 398578003864 hypothetical protein; Provisional; Region: PRK11667 398578003865 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 398578003866 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 398578003867 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 398578003868 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 398578003869 dimer interface [polypeptide binding]; other site 398578003870 conserved gate region; other site 398578003871 putative PBP binding loops; other site 398578003872 ABC-ATPase subunit interface; other site 398578003873 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 398578003874 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 398578003875 dimer interface [polypeptide binding]; other site 398578003876 conserved gate region; other site 398578003877 putative PBP binding loops; other site 398578003878 ABC-ATPase subunit interface; other site 398578003879 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 398578003880 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398578003881 Walker A/P-loop; other site 398578003882 ATP binding site [chemical binding]; other site 398578003883 Q-loop/lid; other site 398578003884 ABC transporter signature motif; other site 398578003885 Walker B; other site 398578003886 D-loop; other site 398578003887 H-loop/switch region; other site 398578003888 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398578003889 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398578003890 Walker A/P-loop; other site 398578003891 ATP binding site [chemical binding]; other site 398578003892 Q-loop/lid; other site 398578003893 ABC transporter signature motif; other site 398578003894 Walker B; other site 398578003895 D-loop; other site 398578003896 H-loop/switch region; other site 398578003897 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398578003898 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 398578003899 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 398578003900 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 398578003901 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 398578003902 Ligand Binding Site [chemical binding]; other site 398578003903 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 398578003904 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 398578003905 Dihydroneopterin aldolase; Region: FolB; smart00905 398578003906 active site 398578003907 short chain dehydrogenase; Provisional; Region: PRK09134 398578003908 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398578003909 NAD(P) binding site [chemical binding]; other site 398578003910 active site 398578003911 Uncharacterized conserved protein [Function unknown]; Region: COG1565 398578003912 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 398578003913 thioredoxin 2; Provisional; Region: PRK10996 398578003914 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 398578003915 catalytic residues [active] 398578003916 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398578003917 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 398578003918 active site 398578003919 phosphorylation site [posttranslational modification] 398578003920 intermolecular recognition site; other site 398578003921 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 398578003922 DNA binding site [nucleotide binding] 398578003923 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 398578003924 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 398578003925 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398578003926 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 398578003927 dimer interface [polypeptide binding]; other site 398578003928 phosphorylation site [posttranslational modification] 398578003929 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 398578003930 ATP binding site [chemical binding]; other site 398578003931 G-X-G motif; other site 398578003932 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 398578003933 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 398578003934 active site 398578003935 NTP binding site [chemical binding]; other site 398578003936 metal binding triad [ion binding]; metal-binding site 398578003937 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 398578003938 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398578003939 Zn2+ binding site [ion binding]; other site 398578003940 Mg2+ binding site [ion binding]; other site 398578003941 hypothetical protein; Provisional; Region: PRK08201 398578003942 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_1; cd05678 398578003943 putative metal binding site [ion binding]; other site 398578003944 putative dimer interface [polypeptide binding]; other site 398578003945 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 398578003946 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398578003947 putative C-terminal domain interface [polypeptide binding]; other site 398578003948 putative GSH binding site (G-site) [chemical binding]; other site 398578003949 putative dimer interface [polypeptide binding]; other site 398578003950 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 398578003951 putative N-terminal domain interface [polypeptide binding]; other site 398578003952 putative dimer interface [polypeptide binding]; other site 398578003953 putative substrate binding pocket (H-site) [chemical binding]; other site 398578003954 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 398578003955 Ligand Binding Site [chemical binding]; other site 398578003956 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 398578003957 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 398578003958 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 398578003959 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398578003960 catalytic residue [active] 398578003961 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 398578003962 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 398578003963 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 398578003964 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578003965 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 398578003966 acyl-activating enzyme (AAE) consensus motif; other site 398578003967 putative AMP binding site [chemical binding]; other site 398578003968 putative active site [active] 398578003969 putative CoA binding site [chemical binding]; other site 398578003970 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398578003971 PGAP1-like protein; Region: PGAP1; pfam07819 398578003972 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 398578003973 cofactor binding site; other site 398578003974 metal binding site [ion binding]; metal-binding site 398578003975 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578003976 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398578003977 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 398578003978 dimerization interface [polypeptide binding]; other site 398578003979 putative DNA binding site [nucleotide binding]; other site 398578003980 putative Zn2+ binding site [ion binding]; other site 398578003981 AsnC family; Region: AsnC_trans_reg; pfam01037 398578003982 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398578003983 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398578003984 Coenzyme A binding pocket [chemical binding]; other site 398578003985 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 398578003986 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 398578003987 Transporter associated domain; Region: CorC_HlyC; smart01091 398578003988 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 398578003989 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 398578003990 putative active site [active] 398578003991 catalytic triad [active] 398578003992 putative dimer interface [polypeptide binding]; other site 398578003993 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 398578003994 dimer interface [polypeptide binding]; other site 398578003995 active site 1 [active] 398578003996 active site 2 [active] 398578003997 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 398578003998 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 398578003999 dimer interface [polypeptide binding]; other site 398578004000 active site 398578004001 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 398578004002 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 398578004003 NAD binding site [chemical binding]; other site 398578004004 substrate binding site [chemical binding]; other site 398578004005 homodimer interface [polypeptide binding]; other site 398578004006 active site 398578004007 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 398578004008 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 398578004009 NADP binding site [chemical binding]; other site 398578004010 active site 398578004011 putative substrate binding site [chemical binding]; other site 398578004012 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 398578004013 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 398578004014 substrate binding site; other site 398578004015 tetramer interface; other site 398578004016 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 398578004017 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 398578004018 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578004019 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 398578004020 dimerization interface [polypeptide binding]; other site 398578004021 Cytosine/uracil/thiamine/allantoin permeases [Nucleotide transport and metabolism / Coenzyme metabolism]; Region: FUI1; COG1953 398578004022 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 398578004023 Na binding site [ion binding]; other site 398578004024 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398578004025 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578004026 DNA-binding site [nucleotide binding]; DNA binding site 398578004027 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 398578004028 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 398578004029 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 398578004030 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 398578004031 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578004032 Walker A/P-loop; other site 398578004033 ATP binding site [chemical binding]; other site 398578004034 Q-loop/lid; other site 398578004035 ABC transporter signature motif; other site 398578004036 Walker B; other site 398578004037 D-loop; other site 398578004038 H-loop/switch region; other site 398578004039 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 398578004040 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 398578004041 dimer interface [polypeptide binding]; other site 398578004042 conserved gate region; other site 398578004043 putative PBP binding loops; other site 398578004044 ABC-ATPase subunit interface; other site 398578004045 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 398578004046 dimer interface [polypeptide binding]; other site 398578004047 conserved gate region; other site 398578004048 putative PBP binding loops; other site 398578004049 ABC-ATPase subunit interface; other site 398578004050 FAD dependent oxidoreductase TIGR03364; Region: HpnW_proposed 398578004051 hydroxyglutarate oxidase; Provisional; Region: PRK11728 398578004052 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 398578004053 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 398578004054 Helix-turn-helix domain; Region: HTH_17; pfam12728 398578004055 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 398578004056 dimer interface [polypeptide binding]; other site 398578004057 motif 1; other site 398578004058 active site 398578004059 motif 2; other site 398578004060 motif 3; other site 398578004061 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 398578004062 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 398578004063 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 398578004064 active site 398578004065 motif I; other site 398578004066 motif II; other site 398578004067 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 398578004068 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 398578004069 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 398578004070 putative acyl-acceptor binding pocket; other site 398578004071 Protein of unknown function DUF45; Region: DUF45; pfam01863 398578004072 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 398578004073 active site residue [active] 398578004074 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578004075 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578004076 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 398578004077 dimerization interface [polypeptide binding]; other site 398578004078 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578004079 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 398578004080 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 398578004081 BON domain; Region: BON; pfam04972 398578004082 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398578004083 pantothenate kinase; Reviewed; Region: PRK13329 398578004084 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 398578004085 type II secretion system protein E; Region: type_II_gspE; TIGR02533 398578004086 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 398578004087 Walker A motif; other site 398578004088 ATP binding site [chemical binding]; other site 398578004089 Walker B motif; other site 398578004090 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 398578004091 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398578004092 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398578004093 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 398578004094 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 398578004095 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 398578004096 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 398578004097 Type II transport protein GspH; Region: GspH; pfam12019 398578004098 type II secretion system protein I; Region: gspI; TIGR01707 398578004099 general secretion pathway protein J; Validated; Region: PRK08808 398578004100 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 398578004101 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 398578004102 Type II secretion system (T2SS), protein M subtype b; Region: T2SM_b; pfam10741 398578004103 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398578004104 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398578004105 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398578004106 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 398578004107 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398578004108 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 398578004109 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 398578004110 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 398578004111 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 398578004112 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 398578004113 Walker A/P-loop; other site 398578004114 ATP binding site [chemical binding]; other site 398578004115 Q-loop/lid; other site 398578004116 ABC transporter signature motif; other site 398578004117 Walker B; other site 398578004118 D-loop; other site 398578004119 H-loop/switch region; other site 398578004120 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 398578004121 putative carbohydrate binding site [chemical binding]; other site 398578004122 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 398578004123 putative acyl-acceptor binding pocket; other site 398578004124 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 398578004125 S-adenosylmethionine binding site [chemical binding]; other site 398578004126 Methyltransferase domain; Region: Methyltransf_23; pfam13489 398578004127 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 398578004128 S-adenosylmethionine binding site [chemical binding]; other site 398578004129 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 398578004130 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 398578004131 Probable Catalytic site; other site 398578004132 metal-binding site 398578004133 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 398578004134 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398578004135 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 398578004136 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 398578004137 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 398578004138 Mg++ binding site [ion binding]; other site 398578004139 putative catalytic motif [active] 398578004140 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 398578004141 feedback inhibition sensing region; other site 398578004142 homohexameric interface [polypeptide binding]; other site 398578004143 nucleotide binding site [chemical binding]; other site 398578004144 N-acetyl-L-glutamate binding site [chemical binding]; other site 398578004145 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398578004146 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 398578004147 active site 398578004148 phosphorylation site [posttranslational modification] 398578004149 intermolecular recognition site; other site 398578004150 dimerization interface [polypeptide binding]; other site 398578004151 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 398578004152 DNA binding site [nucleotide binding] 398578004153 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 398578004154 HAMP domain; Region: HAMP; pfam00672 398578004155 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 398578004156 phosphorylation site [posttranslational modification] 398578004157 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 398578004158 ATP binding site [chemical binding]; other site 398578004159 Mg2+ binding site [ion binding]; other site 398578004160 G-X-G motif; other site 398578004161 division inhibitor protein; Provisional; Region: slmA; PRK09480 398578004162 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578004163 Predicted transcriptional regulator [Transcription]; Region: COG2932 398578004164 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 398578004165 Catalytic site [active] 398578004166 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 398578004167 Borrelia P83/100 protein; Region: Borrelia_P83; pfam05262 398578004168 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 398578004169 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578004170 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578004171 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 398578004172 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 398578004173 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578004174 active site 398578004175 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 398578004176 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 398578004177 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 398578004178 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 398578004179 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398578004180 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398578004181 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 398578004182 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 398578004183 substrate binding site [chemical binding]; other site 398578004184 oxyanion hole (OAH) forming residues; other site 398578004185 trimer interface [polypeptide binding]; other site 398578004186 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 398578004187 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 398578004188 dimer interface [polypeptide binding]; other site 398578004189 active site 398578004190 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 398578004191 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398578004192 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 398578004193 enoyl-CoA hydratase; Provisional; Region: PRK06688 398578004194 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 398578004195 substrate binding site [chemical binding]; other site 398578004196 oxyanion hole (OAH) forming residues; other site 398578004197 trimer interface [polypeptide binding]; other site 398578004198 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 398578004199 CoenzymeA binding site [chemical binding]; other site 398578004200 subunit interaction site [polypeptide binding]; other site 398578004201 PHB binding site; other site 398578004202 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_3; cd13148 398578004203 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 398578004204 Transcriptional regulators [Transcription]; Region: MarR; COG1846 398578004205 MarR family; Region: MarR; pfam01047 398578004206 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 398578004207 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 398578004208 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398578004209 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 398578004210 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 398578004211 Walker A/P-loop; other site 398578004212 ATP binding site [chemical binding]; other site 398578004213 Q-loop/lid; other site 398578004214 ABC transporter signature motif; other site 398578004215 Walker B; other site 398578004216 D-loop; other site 398578004217 H-loop/switch region; other site 398578004218 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 398578004219 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398578004220 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 398578004221 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578004222 DNA-binding site [nucleotide binding]; DNA binding site 398578004223 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 398578004224 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 398578004225 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 398578004226 iron-sulfur cluster [ion binding]; other site 398578004227 [2Fe-2S] cluster binding site [ion binding]; other site 398578004228 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 398578004229 alpha subunit interface [polypeptide binding]; other site 398578004230 active site 398578004231 substrate binding site [chemical binding]; other site 398578004232 Fe binding site [ion binding]; other site 398578004233 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398578004234 MarR family; Region: MarR; pfam01047 398578004235 MarR family; Region: MarR_2; cl17246 398578004236 benzoate transport; Region: 2A0115; TIGR00895 398578004237 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 398578004238 putative substrate translocation pore; other site 398578004239 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 398578004240 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 398578004241 iron-sulfur cluster [ion binding]; other site 398578004242 [2Fe-2S] cluster binding site [ion binding]; other site 398578004243 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 398578004244 alpha subunit interface [polypeptide binding]; other site 398578004245 active site 398578004246 substrate binding site [chemical binding]; other site 398578004247 Fe binding site [ion binding]; other site 398578004248 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 398578004249 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 398578004250 FMN-binding pocket [chemical binding]; other site 398578004251 flavin binding motif; other site 398578004252 phosphate binding motif [ion binding]; other site 398578004253 beta-alpha-beta structure motif; other site 398578004254 NAD binding pocket [chemical binding]; other site 398578004255 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 398578004256 catalytic loop [active] 398578004257 iron binding site [ion binding]; other site 398578004258 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 398578004259 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 398578004260 putative ligand binding site [chemical binding]; other site 398578004261 NAD binding site [chemical binding]; other site 398578004262 catalytic site [active] 398578004263 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578004264 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578004265 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 398578004266 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 398578004267 DctM-like transporters; Region: DctM; pfam06808 398578004268 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 398578004269 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 398578004270 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578004271 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 398578004272 dimerization interface [polypeptide binding]; other site 398578004273 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398578004274 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 398578004275 substrate binding pocket [chemical binding]; other site 398578004276 membrane-bound complex binding site; other site 398578004277 hinge residues; other site 398578004278 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 398578004279 dimer interface [polypeptide binding]; other site 398578004280 conserved gate region; other site 398578004281 putative PBP binding loops; other site 398578004282 ABC-ATPase subunit interface; other site 398578004283 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 398578004284 dimer interface [polypeptide binding]; other site 398578004285 conserved gate region; other site 398578004286 putative PBP binding loops; other site 398578004287 ABC-ATPase subunit interface; other site 398578004288 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398578004289 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 398578004290 Walker A/P-loop; other site 398578004291 ATP binding site [chemical binding]; other site 398578004292 Q-loop/lid; other site 398578004293 ABC transporter signature motif; other site 398578004294 Walker B; other site 398578004295 D-loop; other site 398578004296 H-loop/switch region; other site 398578004297 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 398578004298 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 398578004299 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 398578004300 putative active site [active] 398578004301 hypothetical protein; Provisional; Region: PRK07338 398578004302 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 398578004303 metal binding site [ion binding]; metal-binding site 398578004304 dimer interface [polypeptide binding]; other site 398578004305 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578004306 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578004307 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578004308 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 398578004309 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 398578004310 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398578004311 Uncharacterized conserved protein [Function unknown]; Region: COG5361 398578004312 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 398578004313 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 398578004314 Uncharacterized conserved protein [Function unknown]; Region: COG5361 398578004315 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 398578004316 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 398578004317 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578004318 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 398578004319 CoA binding domain; Region: CoA_binding_2; pfam13380 398578004320 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 398578004321 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 398578004322 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398578004323 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 398578004324 trimer interface [polypeptide binding]; other site 398578004325 eyelet of channel; other site 398578004326 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 398578004327 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398578004328 ligand binding site [chemical binding]; other site 398578004329 flexible hinge region; other site 398578004330 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 398578004331 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578004332 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578004333 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 398578004334 putative dimerization interface [polypeptide binding]; other site 398578004335 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 398578004336 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 398578004337 ligand binding site [chemical binding]; other site 398578004338 NAD binding site [chemical binding]; other site 398578004339 dimerization interface [polypeptide binding]; other site 398578004340 catalytic site [active] 398578004341 hypothetical protein; Validated; Region: PRK06201 398578004342 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 398578004343 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578004344 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 398578004345 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 398578004346 phosphate binding site [ion binding]; other site 398578004347 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 398578004348 active site 398578004349 substrate binding pocket [chemical binding]; other site 398578004350 dimer interface [polypeptide binding]; other site 398578004351 Uncharacterized conserved protein [Function unknown]; Region: COG1432 398578004352 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 398578004353 putative metal binding site [ion binding]; other site 398578004354 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 398578004355 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 398578004356 heat shock protein HtpX; Provisional; Region: PRK05457 398578004357 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 398578004358 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 398578004359 oligomeric interface; other site 398578004360 putative active site [active] 398578004361 homodimer interface [polypeptide binding]; other site 398578004362 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578004363 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578004364 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 398578004365 putative effector binding pocket; other site 398578004366 dimerization interface [polypeptide binding]; other site 398578004367 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 398578004368 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 398578004369 substrate binding site [chemical binding]; other site 398578004370 oxyanion hole (OAH) forming residues; other site 398578004371 trimer interface [polypeptide binding]; other site 398578004372 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 398578004373 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398578004374 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398578004375 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 398578004376 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 398578004377 dimer interface [polypeptide binding]; other site 398578004378 active site 398578004379 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 398578004380 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578004381 active site 398578004382 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 398578004383 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 398578004384 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 398578004385 active site 398578004386 enoyl-CoA hydratase; Provisional; Region: PRK07511 398578004387 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 398578004388 substrate binding site [chemical binding]; other site 398578004389 oxyanion hole (OAH) forming residues; other site 398578004390 trimer interface [polypeptide binding]; other site 398578004391 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398578004392 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398578004393 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578004394 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578004395 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 398578004396 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 398578004397 FMN binding site [chemical binding]; other site 398578004398 substrate binding site [chemical binding]; other site 398578004399 putative catalytic residue [active] 398578004400 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 398578004401 Ligand binding site [chemical binding]; other site 398578004402 Electron transfer flavoprotein domain; Region: ETF; pfam01012 398578004403 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 398578004404 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 398578004405 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 398578004406 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578004407 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 398578004408 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578004409 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 398578004410 acyl-activating enzyme (AAE) consensus motif; other site 398578004411 acyl-activating enzyme (AAE) consensus motif; other site 398578004412 putative AMP binding site [chemical binding]; other site 398578004413 putative active site [active] 398578004414 putative CoA binding site [chemical binding]; other site 398578004415 aldolase II superfamily protein; Provisional; Region: PRK07044 398578004416 intersubunit interface [polypeptide binding]; other site 398578004417 active site 398578004418 Zn2+ binding site [ion binding]; other site 398578004419 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 398578004420 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 398578004421 putative ligand binding site [chemical binding]; other site 398578004422 NAD binding site [chemical binding]; other site 398578004423 dimerization interface [polypeptide binding]; other site 398578004424 catalytic site [active] 398578004425 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578004426 Winged helix-turn helix; Region: HTH_29; pfam13551 398578004427 Homeodomain-like domain; Region: HTH_23; cl17451 398578004428 Integrase core domain; Region: rve; pfam00665 398578004429 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 398578004430 Transposase; Region: HTH_Tnp_1; pfam01527 398578004431 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 398578004432 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 398578004433 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 398578004434 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 398578004435 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 398578004436 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 398578004437 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 398578004438 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 398578004439 Integrase core domain; Region: rve; pfam00665 398578004440 Integrase core domain; Region: rve_3; pfam13683 398578004441 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 398578004442 conserved cys residue [active] 398578004443 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398578004444 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578004445 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 398578004446 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 398578004447 metal binding site [ion binding]; metal-binding site 398578004448 putative dimer interface [polypeptide binding]; other site 398578004449 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 398578004450 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 398578004451 haemagglutination activity domain; Region: Haemagg_act; pfam05860 398578004452 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 398578004453 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 398578004454 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 398578004455 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 398578004456 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 398578004457 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 398578004458 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 398578004459 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 398578004460 putative RNAase interaction site [polypeptide binding]; other site 398578004461 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 398578004462 Nucleotide-binding domain of Escherichia coli HscC and similar proteins; Region: HscC_like_NBD; cd10235 398578004463 nucleotide binding site [chemical binding]; other site 398578004464 putative NEF/HSP70 interaction site [polypeptide binding]; other site 398578004465 SBD interface [polypeptide binding]; other site 398578004466 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 398578004467 HSP70 interaction site [polypeptide binding]; other site 398578004468 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 398578004469 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 398578004470 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 398578004471 fumarate hydratase; Reviewed; Region: fumC; PRK00485 398578004472 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 398578004473 tetramer interface [polypeptide binding]; other site 398578004474 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578004475 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 398578004476 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 398578004477 tetramer interface [polypeptide binding]; other site 398578004478 active site 398578004479 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 398578004480 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578004481 DNA-binding site [nucleotide binding]; DNA binding site 398578004482 UTRA domain; Region: UTRA; pfam07702 398578004483 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 398578004484 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398578004485 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 398578004486 Walker A/P-loop; other site 398578004487 ATP binding site [chemical binding]; other site 398578004488 Q-loop/lid; other site 398578004489 ABC transporter signature motif; other site 398578004490 Walker B; other site 398578004491 D-loop; other site 398578004492 H-loop/switch region; other site 398578004493 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 398578004494 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 398578004495 dimer interface [polypeptide binding]; other site 398578004496 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578004497 catalytic residue [active] 398578004498 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578004499 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578004500 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 398578004501 dimerization interface [polypeptide binding]; other site 398578004502 amidase; Provisional; Region: PRK07056 398578004503 Amidase; Region: Amidase; cl11426 398578004504 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 398578004505 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 398578004506 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 398578004507 putative substrate translocation pore; other site 398578004508 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 398578004509 EamA-like transporter family; Region: EamA; pfam00892 398578004510 EamA-like transporter family; Region: EamA; pfam00892 398578004511 Helix-turn-helix domain; Region: HTH_18; pfam12833 398578004512 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578004513 Secretin and TonB N terminus short domain; Region: STN; smart00965 398578004514 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 398578004515 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 398578004516 N-terminal plug; other site 398578004517 ligand-binding site [chemical binding]; other site 398578004518 RNA polymerase sigma factor; Reviewed; Region: PRK12527 398578004519 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 398578004520 DNA binding residues [nucleotide binding] 398578004521 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 398578004522 FecR protein; Region: FecR; pfam04773 398578004523 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 398578004524 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 398578004525 RNA binding surface [nucleotide binding]; other site 398578004526 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 398578004527 active site 398578004528 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 398578004529 nudix motif; other site 398578004530 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398578004531 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 398578004532 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 398578004533 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 398578004534 Protein of unknown function, DUF484; Region: DUF484; cl17449 398578004535 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 398578004536 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 398578004537 active site 398578004538 DNA binding site [nucleotide binding] 398578004539 Int/Topo IB signature motif; other site 398578004540 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 398578004541 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 398578004542 P-loop, Walker A motif; other site 398578004543 Base recognition motif; other site 398578004544 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 398578004545 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 398578004546 STAS domain; Region: STAS_2; pfam13466 398578004547 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 398578004548 active site 398578004549 HslU subunit interaction site [polypeptide binding]; other site 398578004550 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 398578004551 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 398578004552 Walker A motif; other site 398578004553 ATP binding site [chemical binding]; other site 398578004554 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 398578004555 Walker B motif; other site 398578004556 arginine finger; other site 398578004557 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 398578004558 cell division protein MraZ; Reviewed; Region: PRK00326 398578004559 MraZ protein; Region: MraZ; pfam02381 398578004560 MraZ protein; Region: MraZ; pfam02381 398578004561 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 398578004562 MraW methylase family; Region: Methyltransf_5; cl17771 398578004563 Cell division protein FtsL; Region: FtsL; pfam04999 398578004564 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 398578004565 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 398578004566 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 398578004567 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 398578004568 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 398578004569 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398578004570 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398578004571 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 398578004572 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398578004573 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398578004574 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 398578004575 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 398578004576 Mg++ binding site [ion binding]; other site 398578004577 putative catalytic motif [active] 398578004578 putative substrate binding site [chemical binding]; other site 398578004579 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 398578004580 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398578004581 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398578004582 cell division protein FtsW; Region: ftsW; TIGR02614 398578004583 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 398578004584 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 398578004585 active site 398578004586 homodimer interface [polypeptide binding]; other site 398578004587 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 398578004588 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 398578004589 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398578004590 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398578004591 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 398578004592 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 398578004593 ATP-grasp domain; Region: ATP-grasp_4; cl17255 398578004594 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 398578004595 Cell division protein FtsQ; Region: FtsQ; pfam03799 398578004596 cell division protein FtsA; Region: ftsA; TIGR01174 398578004597 Cell division protein FtsA; Region: FtsA; smart00842 398578004598 Cell division protein FtsA; Region: FtsA; pfam14450 398578004599 cell division protein FtsZ; Validated; Region: PRK09330 398578004600 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 398578004601 nucleotide binding site [chemical binding]; other site 398578004602 SulA interaction site; other site 398578004603 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 398578004604 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 398578004605 Radical SAM superfamily; Region: Radical_SAM; pfam04055 398578004606 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 398578004607 FeS/SAM binding site; other site 398578004608 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398578004609 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 398578004610 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 398578004611 active site 398578004612 putative DNA-binding cleft [nucleotide binding]; other site 398578004613 dimer interface [polypeptide binding]; other site 398578004614 Transglycosylase; Region: Transgly; cl17702 398578004615 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 398578004616 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 398578004617 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 398578004618 shikimate binding site; other site 398578004619 NAD(P) binding site [chemical binding]; other site 398578004620 TonB C terminal; Region: TonB_2; pfam13103 398578004621 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 398578004622 RNB domain; Region: RNB; pfam00773 398578004623 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 398578004624 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398578004625 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 398578004626 protease TldD; Provisional; Region: tldD; PRK10735 398578004627 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 398578004628 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 398578004629 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 398578004630 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 398578004631 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 398578004632 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398578004633 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398578004634 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 398578004635 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398578004636 catalytic residues [active] 398578004637 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 398578004638 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 398578004639 carboxyltransferase (CT) interaction site; other site 398578004640 biotinylation site [posttranslational modification]; other site 398578004641 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 398578004642 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398578004643 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 398578004644 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 398578004645 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 398578004646 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 398578004647 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 398578004648 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 398578004649 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 398578004650 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398578004651 substrate binding site [chemical binding]; other site 398578004652 ATP binding site [chemical binding]; other site 398578004653 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 398578004654 dimer interface [polypeptide binding]; other site 398578004655 putative radical transfer pathway; other site 398578004656 diiron center [ion binding]; other site 398578004657 tyrosyl radical; other site 398578004658 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 398578004659 ATP cone domain; Region: ATP-cone; pfam03477 398578004660 ATP cone domain; Region: ATP-cone; pfam03477 398578004661 Class I ribonucleotide reductase; Region: RNR_I; cd01679 398578004662 active site 398578004663 dimer interface [polypeptide binding]; other site 398578004664 catalytic residues [active] 398578004665 effector binding site; other site 398578004666 R2 peptide binding site; other site 398578004667 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 398578004668 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 398578004669 amidase catalytic site [active] 398578004670 Zn binding residues [ion binding]; other site 398578004671 substrate binding site [chemical binding]; other site 398578004672 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398578004673 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 398578004674 active site 398578004675 phosphorylation site [posttranslational modification] 398578004676 intermolecular recognition site; other site 398578004677 dimerization interface [polypeptide binding]; other site 398578004678 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 398578004679 Walker A motif; other site 398578004680 ATP binding site [chemical binding]; other site 398578004681 Walker B motif; other site 398578004682 arginine finger; other site 398578004683 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398578004684 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398578004685 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 398578004686 dimer interface [polypeptide binding]; other site 398578004687 phosphorylation site [posttranslational modification] 398578004688 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 398578004689 ATP binding site [chemical binding]; other site 398578004690 Mg2+ binding site [ion binding]; other site 398578004691 G-X-G motif; other site 398578004692 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 398578004693 Response regulator receiver domain; Region: Response_reg; pfam00072 398578004694 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 398578004695 active site 398578004696 phosphorylation site [posttranslational modification] 398578004697 intermolecular recognition site; other site 398578004698 dimerization interface [polypeptide binding]; other site 398578004699 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578004700 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578004701 metal binding site [ion binding]; metal-binding site 398578004702 active site 398578004703 I-site; other site 398578004704 PAS domain S-box; Region: sensory_box; TIGR00229 398578004705 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 398578004706 putative active site [active] 398578004707 heme pocket [chemical binding]; other site 398578004708 PAS fold; Region: PAS_4; pfam08448 398578004709 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 398578004710 putative active site [active] 398578004711 heme pocket [chemical binding]; other site 398578004712 PAS fold; Region: PAS_3; pfam08447 398578004713 PAS domain; Region: PAS_9; pfam13426 398578004714 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 398578004715 putative active site [active] 398578004716 heme pocket [chemical binding]; other site 398578004717 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 398578004718 dimer interface [polypeptide binding]; other site 398578004719 phosphorylation site [posttranslational modification] 398578004720 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 398578004721 ATP binding site [chemical binding]; other site 398578004722 Mg2+ binding site [ion binding]; other site 398578004723 G-X-G motif; other site 398578004724 Response regulator receiver domain; Region: Response_reg; pfam00072 398578004725 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 398578004726 active site 398578004727 phosphorylation site [posttranslational modification] 398578004728 intermolecular recognition site; other site 398578004729 dimerization interface [polypeptide binding]; other site 398578004730 Response regulator receiver domain; Region: Response_reg; pfam00072 398578004731 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 398578004732 active site 398578004733 phosphorylation site [posttranslational modification] 398578004734 intermolecular recognition site; other site 398578004735 dimerization interface [polypeptide binding]; other site 398578004736 signal recognition particle protein; Provisional; Region: PRK10867 398578004737 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 398578004738 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 398578004739 GTP binding site [chemical binding]; other site 398578004740 Signal peptide binding domain; Region: SRP_SPB; pfam02978 398578004741 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 398578004742 NlpC/P60 family; Region: NLPC_P60; pfam00877 398578004743 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 398578004744 sequence-specific DNA binding site [nucleotide binding]; other site 398578004745 salt bridge; other site 398578004746 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 398578004747 PcfJ-like protein; Region: PcfJ; pfam14284 398578004748 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 398578004749 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 398578004750 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 398578004751 FeS/SAM binding site; other site 398578004752 TRAM domain; Region: TRAM; pfam01938 398578004753 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 398578004754 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 398578004755 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578004756 Walker A/P-loop; other site 398578004757 ATP binding site [chemical binding]; other site 398578004758 Q-loop/lid; other site 398578004759 ABC transporter signature motif; other site 398578004760 Walker B; other site 398578004761 D-loop; other site 398578004762 H-loop/switch region; other site 398578004763 TOBE domain; Region: TOBE; pfam03459 398578004764 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 398578004765 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 398578004766 dimer interface [polypeptide binding]; other site 398578004767 conserved gate region; other site 398578004768 putative PBP binding loops; other site 398578004769 ABC-ATPase subunit interface; other site 398578004770 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398578004771 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 398578004772 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 398578004773 benzoate transport; Region: 2A0115; TIGR00895 398578004774 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 398578004775 putative substrate translocation pore; other site 398578004776 Imelysin; Region: Peptidase_M75; cl09159 398578004777 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 398578004778 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 398578004779 Imelysin; Region: Peptidase_M75; pfam09375 398578004780 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 398578004781 enoyl-CoA hydratase; Provisional; Region: PRK05862 398578004782 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 398578004783 substrate binding site [chemical binding]; other site 398578004784 oxyanion hole (OAH) forming residues; other site 398578004785 trimer interface [polypeptide binding]; other site 398578004786 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 398578004787 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 398578004788 Domain present in PSD-95, Dlg, and ZO-1/2; Region: PDZ; smart00228 398578004789 protein binding site [polypeptide binding]; other site 398578004790 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 398578004791 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 398578004792 dimerization domain [polypeptide binding]; other site 398578004793 dimer interface [polypeptide binding]; other site 398578004794 catalytic residues [active] 398578004795 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398578004796 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 398578004797 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 398578004798 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 398578004799 MOSC domain; Region: MOSC; pfam03473 398578004800 GTP-binding protein YchF; Reviewed; Region: PRK09601 398578004801 YchF GTPase; Region: YchF; cd01900 398578004802 G1 box; other site 398578004803 GTP/Mg2+ binding site [chemical binding]; other site 398578004804 Switch I region; other site 398578004805 G2 box; other site 398578004806 Switch II region; other site 398578004807 G3 box; other site 398578004808 G4 box; other site 398578004809 G5 box; other site 398578004810 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 398578004811 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 398578004812 Predicted transcriptional regulator [Transcription]; Region: COG2944 398578004813 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 398578004814 non-specific DNA binding site [nucleotide binding]; other site 398578004815 salt bridge; other site 398578004816 sequence-specific DNA binding site [nucleotide binding]; other site 398578004817 Uncharacterized protein family (UPF0167); Region: UPF0167; cl01252 398578004818 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 398578004819 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 398578004820 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 398578004821 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 398578004822 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 398578004823 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 398578004824 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 398578004825 dimerization interface [polypeptide binding]; other site 398578004826 active site 398578004827 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578004828 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 398578004829 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398578004830 NAD(P) binding site [chemical binding]; other site 398578004831 active site 398578004832 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578004833 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578004834 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 398578004835 substrate binding pocket [chemical binding]; other site 398578004836 dimerization interface [polypeptide binding]; other site 398578004837 benzoylformate decarboxylase; Reviewed; Region: PRK07092 398578004838 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398578004839 PYR/PP interface [polypeptide binding]; other site 398578004840 dimer interface [polypeptide binding]; other site 398578004841 TPP binding site [chemical binding]; other site 398578004842 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 398578004843 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 398578004844 TPP-binding site [chemical binding]; other site 398578004845 dimer interface [polypeptide binding]; other site 398578004846 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 398578004847 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 398578004848 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 398578004849 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578004850 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 398578004851 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398578004852 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398578004853 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578004854 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 398578004855 Outer membrane efflux protein; Region: OEP; pfam02321 398578004856 Outer membrane efflux protein; Region: OEP; pfam02321 398578004857 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398578004858 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 398578004859 dimer interface [polypeptide binding]; other site 398578004860 phosphorylation site [posttranslational modification] 398578004861 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 398578004862 ATP binding site [chemical binding]; other site 398578004863 Mg2+ binding site [ion binding]; other site 398578004864 G-X-G motif; other site 398578004865 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 398578004866 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 398578004867 active site 398578004868 phosphorylation site [posttranslational modification] 398578004869 intermolecular recognition site; other site 398578004870 dimerization interface [polypeptide binding]; other site 398578004871 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 398578004872 DNA binding residues [nucleotide binding] 398578004873 dimerization interface [polypeptide binding]; other site 398578004874 Transmembrane secretion effector; Region: MFS_3; pfam05977 398578004875 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 398578004876 Predicted membrane protein [Function unknown]; Region: COG2259 398578004877 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 398578004878 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 398578004879 active site 398578004880 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 398578004881 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 398578004882 Isochorismatase family; Region: Isochorismatase; pfam00857 398578004883 catalytic triad [active] 398578004884 dimer interface [polypeptide binding]; other site 398578004885 conserved cis-peptide bond; other site 398578004886 Pirin-related protein [General function prediction only]; Region: COG1741 398578004887 Pirin; Region: Pirin; pfam02678 398578004888 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578004889 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578004890 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 398578004891 putative effector binding pocket; other site 398578004892 dimerization interface [polypeptide binding]; other site 398578004893 Predicted membrane protein [Function unknown]; Region: COG1238 398578004894 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 398578004895 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 398578004896 FMN binding site [chemical binding]; other site 398578004897 active site 398578004898 catalytic residues [active] 398578004899 substrate binding site [chemical binding]; other site 398578004900 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 398578004901 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 398578004902 purine monophosphate binding site [chemical binding]; other site 398578004903 dimer interface [polypeptide binding]; other site 398578004904 putative catalytic residues [active] 398578004905 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 398578004906 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 398578004907 Cytochrome c; Region: Cytochrom_C; cl11414 398578004908 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 398578004909 Winged helix-turn helix; Region: HTH_29; pfam13551 398578004910 Homeodomain-like domain; Region: HTH_23; cl17451 398578004911 Integrase core domain; Region: rve; pfam00665 398578004912 Integrase core domain; Region: rve_3; pfam13683 398578004913 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 398578004914 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 398578004915 inhibitor-cofactor binding pocket; inhibition site 398578004916 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578004917 catalytic residue [active] 398578004918 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 398578004919 substrate binding site [chemical binding]; other site 398578004920 ATP binding site [chemical binding]; other site 398578004921 Rubredoxin [Energy production and conversion]; Region: COG1773 398578004922 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 398578004923 iron binding site [ion binding]; other site 398578004924 Response regulator receiver domain; Region: Response_reg; pfam00072 398578004925 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 398578004926 active site 398578004927 phosphorylation site [posttranslational modification] 398578004928 intermolecular recognition site; other site 398578004929 dimerization interface [polypeptide binding]; other site 398578004930 Response regulator receiver domain; Region: Response_reg; pfam00072 398578004931 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 398578004932 active site 398578004933 phosphorylation site [posttranslational modification] 398578004934 intermolecular recognition site; other site 398578004935 dimerization interface [polypeptide binding]; other site 398578004936 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 398578004937 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 398578004938 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398578004939 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578004940 dimer interface [polypeptide binding]; other site 398578004941 putative CheW interface [polypeptide binding]; other site 398578004942 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 398578004943 putative binding surface; other site 398578004944 active site 398578004945 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 398578004946 putative binding surface; other site 398578004947 active site 398578004948 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 398578004949 putative binding surface; other site 398578004950 active site 398578004951 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 398578004952 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 398578004953 ATP binding site [chemical binding]; other site 398578004954 Mg2+ binding site [ion binding]; other site 398578004955 G-X-G motif; other site 398578004956 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 398578004957 Response regulator receiver domain; Region: Response_reg; pfam00072 398578004958 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 398578004959 active site 398578004960 phosphorylation site [posttranslational modification] 398578004961 intermolecular recognition site; other site 398578004962 dimerization interface [polypeptide binding]; other site 398578004963 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 398578004964 DNA photolyase; Region: DNA_photolyase; pfam00875 398578004965 hypothetical protein; Validated; Region: PRK00228 398578004966 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 398578004967 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398578004968 active site 398578004969 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 398578004970 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 398578004971 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 398578004972 dihydroorotase; Provisional; Region: PRK07627 398578004973 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 398578004974 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 398578004975 active site 398578004976 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 398578004977 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 398578004978 putative acyl-acceptor binding pocket; other site 398578004979 putative acetyltransferase; Provisional; Region: PRK03624 398578004980 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398578004981 Coenzyme A binding pocket [chemical binding]; other site 398578004982 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 398578004983 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 398578004984 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 398578004985 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 398578004986 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 398578004987 Walker A/P-loop; other site 398578004988 ATP binding site [chemical binding]; other site 398578004989 Q-loop/lid; other site 398578004990 ABC transporter signature motif; other site 398578004991 Walker B; other site 398578004992 D-loop; other site 398578004993 H-loop/switch region; other site 398578004994 TOBE domain; Region: TOBE_2; pfam08402 398578004995 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 398578004996 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 398578004997 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578004998 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578004999 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 398578005000 dimerization interface [polypeptide binding]; other site 398578005001 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 398578005002 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 398578005003 active site 398578005004 putative substrate binding pocket [chemical binding]; other site 398578005005 xanthine permease; Region: pbuX; TIGR03173 398578005006 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 398578005007 ArsC family; Region: ArsC; pfam03960 398578005008 catalytic residues [active] 398578005009 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 398578005010 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 398578005011 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 398578005012 protein binding site [polypeptide binding]; other site 398578005013 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 398578005014 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398578005015 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578005016 Walker A/P-loop; other site 398578005017 ATP binding site [chemical binding]; other site 398578005018 Q-loop/lid; other site 398578005019 ABC transporter signature motif; other site 398578005020 Walker B; other site 398578005021 D-loop; other site 398578005022 H-loop/switch region; other site 398578005023 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]; Region: CDC14; COG2453 398578005024 active site 398578005025 catalytic residues [active] 398578005026 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398578005027 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 398578005028 active site 398578005029 phosphorylation site [posttranslational modification] 398578005030 intermolecular recognition site; other site 398578005031 dimerization interface [polypeptide binding]; other site 398578005032 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 398578005033 DNA binding site [nucleotide binding] 398578005034 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 398578005035 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 398578005036 dimer interface [polypeptide binding]; other site 398578005037 phosphorylation site [posttranslational modification] 398578005038 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 398578005039 ATP binding site [chemical binding]; other site 398578005040 Mg2+ binding site [ion binding]; other site 398578005041 G-X-G motif; other site 398578005042 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398578005043 GAF domain; Region: GAF_3; pfam13492 398578005044 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578005045 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578005046 metal binding site [ion binding]; metal-binding site 398578005047 active site 398578005048 I-site; other site 398578005049 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398578005050 Tar ligand binding domain homologue; Region: TarH; pfam02203 398578005051 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 398578005052 dimerization interface [polypeptide binding]; other site 398578005053 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398578005054 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578005055 dimer interface [polypeptide binding]; other site 398578005056 putative CheW interface [polypeptide binding]; other site 398578005057 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 398578005058 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398578005059 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 398578005060 Bacterial transcriptional regulator; Region: IclR; pfam01614 398578005061 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 398578005062 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 398578005063 inhibitor site; inhibition site 398578005064 active site 398578005065 dimer interface [polypeptide binding]; other site 398578005066 catalytic residue [active] 398578005067 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578005068 glutathione S-transferase; Provisional; Region: PRK15113 398578005069 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 398578005070 C-terminal domain interface [polypeptide binding]; other site 398578005071 GSH binding site (G-site) [chemical binding]; other site 398578005072 dimer interface [polypeptide binding]; other site 398578005073 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 398578005074 putative dimer interface [polypeptide binding]; other site 398578005075 N-terminal domain interface [polypeptide binding]; other site 398578005076 putative substrate binding pocket (H-site) [chemical binding]; other site 398578005077 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 398578005078 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 398578005079 non-specific DNA binding site [nucleotide binding]; other site 398578005080 salt bridge; other site 398578005081 sequence-specific DNA binding site [nucleotide binding]; other site 398578005082 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 398578005083 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 398578005084 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 398578005085 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 398578005086 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 398578005087 active site 398578005088 DNA binding site [nucleotide binding] 398578005089 Int/Topo IB signature motif; other site 398578005090 ParB-like nuclease domain; Region: ParBc; pfam02195 398578005091 KorB domain; Region: KorB; pfam08535 398578005092 Predicted transcriptional regulator [Transcription]; Region: COG2932 398578005093 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 398578005094 non-specific DNA binding site [nucleotide binding]; other site 398578005095 salt bridge; other site 398578005096 sequence-specific DNA binding site [nucleotide binding]; other site 398578005097 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 398578005098 Catalytic site [active] 398578005099 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 398578005100 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398578005101 non-specific DNA binding site [nucleotide binding]; other site 398578005102 salt bridge; other site 398578005103 sequence-specific DNA binding site [nucleotide binding]; other site 398578005104 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 398578005105 ATP binding site [chemical binding]; other site 398578005106 putative Mg++ binding site [ion binding]; other site 398578005107 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 398578005108 nucleotide binding region [chemical binding]; other site 398578005109 ATP-binding site [chemical binding]; other site 398578005110 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 398578005111 Toprim domain; Region: Toprim_3; pfam13362 398578005112 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 398578005113 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 398578005114 active site 398578005115 AAA domain; Region: AAA_33; pfam13671 398578005116 AAA domain; Region: AAA_17; pfam13207 398578005117 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 398578005118 Phage terminase, small subunit; Region: Terminase_4; cl01525 398578005119 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 398578005120 Phage-related protein [Function unknown]; Region: COG4695 398578005121 Phage portal protein; Region: Phage_portal; pfam04860 398578005122 Clp protease; Region: CLP_protease; pfam00574 398578005123 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 398578005124 oligomer interface [polypeptide binding]; other site 398578005125 active site residues [active] 398578005126 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 398578005127 Phage capsid family; Region: Phage_capsid; pfam05065 398578005128 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 398578005129 Head-Tail Connector Proteins gp6 and gp15, and similar proteins; Region: gp6_gp15_like; cl12049 398578005130 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 398578005131 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 398578005132 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 398578005133 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 398578005134 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 398578005135 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 398578005136 NlpC/P60 family; Region: NLPC_P60; cl17555 398578005137 Putative phage tail protein; Region: Phage-tail_3; pfam13550 398578005138 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 398578005139 Pentraxins are plasma proteins characterized by their pentameric discoid assembly and their Ca2+ dependent ligand binding, such as Serum amyloid P component (SAP) and C-reactive Protein (CRP), which are cytokine-inducible acute-phase proteins implicated...; Region: PTX; cl00102 398578005140 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 398578005141 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 398578005142 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 398578005143 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 398578005144 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 398578005145 Family of unknown function (DUF490); Region: DUF490; pfam04357 398578005146 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 398578005147 Surface antigen; Region: Bac_surface_Ag; pfam01103 398578005148 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 398578005149 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 398578005150 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 398578005151 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 398578005152 Walker A motif; other site 398578005153 ATP binding site [chemical binding]; other site 398578005154 Walker B motif; other site 398578005155 arginine finger; other site 398578005156 Cytochrome c553 [Energy production and conversion]; Region: COG2863 398578005157 Cytochrome c; Region: Cytochrom_C; cl11414 398578005158 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 398578005159 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 398578005160 KR domain; Region: KR; pfam08659 398578005161 putative NAD(P) binding site [chemical binding]; other site 398578005162 homodimer interface [polypeptide binding]; other site 398578005163 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578005164 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578005165 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 398578005166 dimerization interface [polypeptide binding]; other site 398578005167 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 398578005168 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 398578005169 TrkA-N domain; Region: TrkA_N; pfam02254 398578005170 LysE type translocator; Region: LysE; cl00565 398578005171 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 398578005172 putative active site [active] 398578005173 putative catalytic site [active] 398578005174 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398578005175 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 398578005176 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 398578005177 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398578005178 active site 398578005179 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 398578005180 cytochrome c oxidase subunit II; Validated; Region: COX2; MTH00023 398578005181 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 398578005182 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 398578005183 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398578005184 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 398578005185 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 398578005186 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 398578005187 Subunit I/III interface [polypeptide binding]; other site 398578005188 D-pathway; other site 398578005189 Subunit I/VIIc interface [polypeptide binding]; other site 398578005190 Subunit I/IV interface [polypeptide binding]; other site 398578005191 Subunit I/II interface [polypeptide binding]; other site 398578005192 Low-spin heme (heme a) binding site [chemical binding]; other site 398578005193 Subunit I/VIIa interface [polypeptide binding]; other site 398578005194 Subunit I/VIa interface [polypeptide binding]; other site 398578005195 Dimer interface; other site 398578005196 Putative water exit pathway; other site 398578005197 Binuclear center (heme a3/CuB) [ion binding]; other site 398578005198 K-pathway; other site 398578005199 Subunit I/Vb interface [polypeptide binding]; other site 398578005200 Putative proton exit pathway; other site 398578005201 Subunit I/VIb interface; other site 398578005202 Subunit I/VIc interface [polypeptide binding]; other site 398578005203 Electron transfer pathway; other site 398578005204 Subunit I/VIIIb interface [polypeptide binding]; other site 398578005205 Subunit I/VIIb interface [polypeptide binding]; other site 398578005206 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 398578005207 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 398578005208 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 398578005209 Subunit III/VIIa interface [polypeptide binding]; other site 398578005210 Phospholipid binding site [chemical binding]; other site 398578005211 Subunit I/III interface [polypeptide binding]; other site 398578005212 Subunit III/VIb interface [polypeptide binding]; other site 398578005213 Subunit III/VIa interface; other site 398578005214 Subunit III/Vb interface [polypeptide binding]; other site 398578005215 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 398578005216 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 398578005217 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398578005218 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 398578005219 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 398578005220 Cu(I) binding site [ion binding]; other site 398578005221 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 398578005222 PAS domain; Region: PAS_9; pfam13426 398578005223 putative active site [active] 398578005224 heme pocket [chemical binding]; other site 398578005225 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 398578005226 HAMP domain; Region: HAMP; pfam00672 398578005227 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578005228 dimer interface [polypeptide binding]; other site 398578005229 putative CheW interface [polypeptide binding]; other site 398578005230 PAS domain S-box; Region: sensory_box; TIGR00229 398578005231 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 398578005232 putative active site [active] 398578005233 heme pocket [chemical binding]; other site 398578005234 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578005235 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578005236 metal binding site [ion binding]; metal-binding site 398578005237 active site 398578005238 I-site; other site 398578005239 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 398578005240 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 398578005241 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 398578005242 non-specific DNA binding site [nucleotide binding]; other site 398578005243 sequence-specific DNA binding site [nucleotide binding]; other site 398578005244 salt bridge; other site 398578005245 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 398578005246 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398578005247 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 398578005248 ligand binding site [chemical binding]; other site 398578005249 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 398578005250 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 398578005251 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 398578005252 dimer interface [polypeptide binding]; other site 398578005253 active site 398578005254 Fatty acid desaturase; Region: FA_desaturase; pfam00487 398578005255 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 398578005256 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 398578005257 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578005258 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 398578005259 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398578005260 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 398578005261 DNA binding residues [nucleotide binding] 398578005262 mobile mystery protein A; Region: mob_myst_A; TIGR02612 398578005263 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 398578005264 non-specific DNA binding site [nucleotide binding]; other site 398578005265 salt bridge; other site 398578005266 sequence-specific DNA binding site [nucleotide binding]; other site 398578005267 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 398578005268 sequence-specific DNA binding site [nucleotide binding]; other site 398578005269 salt bridge; other site 398578005270 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398578005271 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 398578005272 non-specific DNA binding site [nucleotide binding]; other site 398578005273 salt bridge; other site 398578005274 sequence-specific DNA binding site [nucleotide binding]; other site 398578005275 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 398578005276 Integrase core domain; Region: rve; pfam00665 398578005277 Bacterial TniB protein; Region: TniB; pfam05621 398578005278 AAA domain; Region: AAA_22; pfam13401 398578005279 TniQ; Region: TniQ; pfam06527 398578005280 H-NS histone family; Region: Histone_HNS; pfam00816 398578005281 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 398578005282 Sulfatase; Region: Sulfatase; cl17466 398578005283 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 398578005284 HAMP domain; Region: HAMP; pfam00672 398578005285 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 398578005286 dimer interface [polypeptide binding]; other site 398578005287 phosphorylation site [posttranslational modification] 398578005288 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 398578005289 ATP binding site [chemical binding]; other site 398578005290 Mg2+ binding site [ion binding]; other site 398578005291 G-X-G motif; other site 398578005292 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 398578005293 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 398578005294 active site 398578005295 phosphorylation site [posttranslational modification] 398578005296 intermolecular recognition site; other site 398578005297 dimerization interface [polypeptide binding]; other site 398578005298 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 398578005299 DNA binding site [nucleotide binding] 398578005300 Outer membrane efflux protein; Region: OEP; pfam02321 398578005301 Outer membrane efflux protein; Region: OEP; pfam02321 398578005302 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 398578005303 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578005304 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 398578005305 putative metal dependent hydrolase; Provisional; Region: PRK11598 398578005306 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 398578005307 Sulfatase; Region: Sulfatase; pfam00884 398578005308 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 398578005309 Double zinc ribbon; Region: DZR; pfam12773 398578005310 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 398578005311 Heavy-metal-associated domain; Region: HMA; pfam00403 398578005312 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398578005313 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 398578005314 motif II; other site 398578005315 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 398578005316 active site 398578005317 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 398578005318 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398578005319 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 398578005320 trimer interface [polypeptide binding]; other site 398578005321 eyelet of channel; other site 398578005322 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 398578005323 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 398578005324 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398578005325 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 398578005326 DNA binding site [nucleotide binding] 398578005327 Chromate transporter; Region: Chromate_transp; cl17781 398578005328 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 398578005329 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 398578005330 putative Cl- selectivity filter; other site 398578005331 putative pore gating glutamate residue; other site 398578005332 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 398578005333 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 398578005334 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578005335 AAA domain; Region: AAA_21; pfam13304 398578005336 Walker A/P-loop; other site 398578005337 ATP binding site [chemical binding]; other site 398578005338 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578005339 Q-loop/lid; other site 398578005340 ABC transporter signature motif; other site 398578005341 Walker B; other site 398578005342 D-loop; other site 398578005343 H-loop/switch region; other site 398578005344 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 398578005345 active site 398578005346 EamA-like transporter family; Region: EamA; pfam00892 398578005347 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 398578005348 EamA-like transporter family; Region: EamA; pfam00892 398578005349 Outer membrane efflux protein; Region: OEP; pfam02321 398578005350 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 398578005351 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578005352 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 398578005353 Protein export membrane protein; Region: SecD_SecF; cl14618 398578005354 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 398578005355 Uncharacterized conserved protein [Function unknown]; Region: COG4933 398578005356 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398578005357 EVE domain; Region: EVE; cl00728 398578005358 HTH-like domain; Region: HTH_21; pfam13276 398578005359 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 398578005360 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 398578005361 Helix-turn-helix domain; Region: HTH_38; pfam13936 398578005362 Integrase core domain; Region: rve; pfam00665 398578005363 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398578005364 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 398578005365 non-specific DNA binding site [nucleotide binding]; other site 398578005366 salt bridge; other site 398578005367 sequence-specific DNA binding site [nucleotide binding]; other site 398578005368 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398578005369 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398578005370 Bacterial transcriptional regulator; Region: IclR; pfam01614 398578005371 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578005372 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 398578005373 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 398578005374 substrate binding site [chemical binding]; other site 398578005375 oxyanion hole (OAH) forming residues; other site 398578005376 trimer interface [polypeptide binding]; other site 398578005377 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 398578005378 CoA binding domain; Region: CoA_binding_2; pfam13380 398578005379 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 398578005380 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 398578005381 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 398578005382 acetyl-CoA synthetase; Provisional; Region: PRK00174 398578005383 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 398578005384 active site 398578005385 CoA binding site [chemical binding]; other site 398578005386 acyl-activating enzyme (AAE) consensus motif; other site 398578005387 AMP binding site [chemical binding]; other site 398578005388 acetate binding site [chemical binding]; other site 398578005389 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 398578005390 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 398578005391 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; pfam01874 398578005392 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 398578005393 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293; cl07913 398578005394 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; pfam06833 398578005395 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 398578005396 malonate decarboxylase acyl carrier protein; Region: malonate_delta; TIGR03130 398578005397 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 398578005398 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 398578005399 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578005400 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578005401 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 398578005402 dimerization interface [polypeptide binding]; other site 398578005403 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 398578005404 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 398578005405 active site 398578005406 dimer interface [polypeptide binding]; other site 398578005407 non-prolyl cis peptide bond; other site 398578005408 insertion regions; other site 398578005409 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 398578005410 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 398578005411 Walker A motif; other site 398578005412 ATP binding site [chemical binding]; other site 398578005413 Walker B motif; other site 398578005414 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398578005415 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578005416 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 398578005417 active site 398578005418 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398578005419 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 398578005420 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578005421 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 398578005422 active site 398578005423 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 398578005424 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 398578005425 active site 398578005426 non-prolyl cis peptide bond; other site 398578005427 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 398578005428 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 398578005429 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578005430 active site 398578005431 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 398578005432 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578005433 active site 398578005434 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 398578005435 dimer interface [polypeptide binding]; other site 398578005436 conserved gate region; other site 398578005437 ABC-ATPase subunit interface; other site 398578005438 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398578005439 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 398578005440 Walker A/P-loop; other site 398578005441 ATP binding site [chemical binding]; other site 398578005442 Q-loop/lid; other site 398578005443 ABC transporter signature motif; other site 398578005444 Walker B; other site 398578005445 D-loop; other site 398578005446 H-loop/switch region; other site 398578005447 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 398578005448 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 398578005449 MarR family; Region: MarR_2; cl17246 398578005450 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398578005451 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_9; cd07245 398578005452 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398578005453 dimer interface [polypeptide binding]; other site 398578005454 putative metal binding site [ion binding]; other site 398578005455 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 398578005456 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398578005457 classical (c) SDRs; Region: SDR_c; cd05233 398578005458 NAD(P) binding site [chemical binding]; other site 398578005459 active site 398578005460 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578005461 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398578005462 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578005463 short chain dehydrogenase; Provisional; Region: PRK08265 398578005464 classical (c) SDRs; Region: SDR_c; cd05233 398578005465 NAD(P) binding site [chemical binding]; other site 398578005466 active site 398578005467 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 398578005468 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 398578005469 SnoaL-like domain; Region: SnoaL_2; pfam12680 398578005470 Transcriptional regulators [Transcription]; Region: MarR; COG1846 398578005471 MarR family; Region: MarR_2; pfam12802 398578005472 MarR family; Region: MarR_2; cl17246 398578005473 aldolase II superfamily protein; Provisional; Region: PRK07044 398578005474 intersubunit interface [polypeptide binding]; other site 398578005475 active site 398578005476 Zn2+ binding site [ion binding]; other site 398578005477 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 398578005478 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 398578005479 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 398578005480 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 398578005481 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578005482 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 398578005483 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 398578005484 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 398578005485 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 398578005486 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 398578005487 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 398578005488 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 398578005489 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 398578005490 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 398578005491 S-adenosylmethionine binding site [chemical binding]; other site 398578005492 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 398578005493 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 398578005494 active site 398578005495 (T/H)XGH motif; other site 398578005496 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 398578005497 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 398578005498 periplasmic protein; Provisional; Region: PRK10568 398578005499 CHASE3 domain; Region: CHASE3; pfam05227 398578005500 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 398578005501 Histidine kinase; Region: HisKA_3; pfam07730 398578005502 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 398578005503 ATP binding site [chemical binding]; other site 398578005504 Mg2+ binding site [ion binding]; other site 398578005505 G-X-G motif; other site 398578005506 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398578005507 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 398578005508 active site 398578005509 phosphorylation site [posttranslational modification] 398578005510 intermolecular recognition site; other site 398578005511 dimerization interface [polypeptide binding]; other site 398578005512 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 398578005513 DNA binding residues [nucleotide binding] 398578005514 dimerization interface [polypeptide binding]; other site 398578005515 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 398578005516 Response regulator receiver domain; Region: Response_reg; pfam00072 398578005517 active site 398578005518 phosphorylation site [posttranslational modification] 398578005519 intermolecular recognition site; other site 398578005520 dimerization interface [polypeptide binding]; other site 398578005521 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 398578005522 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 398578005523 ATP binding site [chemical binding]; other site 398578005524 substrate interface [chemical binding]; other site 398578005525 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 398578005526 C-terminal peptidase (prc); Region: prc; TIGR00225 398578005527 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 398578005528 protein binding site [polypeptide binding]; other site 398578005529 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 398578005530 Catalytic dyad [active] 398578005531 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 398578005532 catalytic core [active] 398578005533 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 398578005534 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 398578005535 active site residue [active] 398578005536 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 398578005537 GSH binding site [chemical binding]; other site 398578005538 catalytic residues [active] 398578005539 preprotein translocase subunit SecB; Validated; Region: PRK05751 398578005540 SecA binding site; other site 398578005541 Preprotein binding site; other site 398578005542 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 398578005543 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 398578005544 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 398578005545 diaminopimelate decarboxylase; Provisional; Region: PRK11165 398578005546 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 398578005547 active site 398578005548 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398578005549 substrate binding site [chemical binding]; other site 398578005550 catalytic residues [active] 398578005551 dimer interface [polypeptide binding]; other site 398578005552 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 398578005553 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578005554 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 398578005555 dimerization interface [polypeptide binding]; other site 398578005556 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 398578005557 Pantoate-beta-alanine ligase; Region: PanC; cd00560 398578005558 pantoate--beta-alanine ligase; Region: panC; TIGR00018 398578005559 active site 398578005560 ATP-binding site [chemical binding]; other site 398578005561 pantoate-binding site; other site 398578005562 HXXH motif; other site 398578005563 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 398578005564 oligomerization interface [polypeptide binding]; other site 398578005565 active site 398578005566 metal binding site [ion binding]; metal-binding site 398578005567 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398578005568 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578005569 Walker A/P-loop; other site 398578005570 ATP binding site [chemical binding]; other site 398578005571 Q-loop/lid; other site 398578005572 ABC transporter signature motif; other site 398578005573 Walker B; other site 398578005574 D-loop; other site 398578005575 H-loop/switch region; other site 398578005576 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398578005577 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 398578005578 ligand binding site [chemical binding]; other site 398578005579 flexible hinge region; other site 398578005580 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578005581 DTW domain; Region: DTW; cl01221 398578005582 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 398578005583 putative substrate binding pocket [chemical binding]; other site 398578005584 trimer interface [polypeptide binding]; other site 398578005585 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 398578005586 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 398578005587 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398578005588 catalytic residue [active] 398578005589 AAA domain; Region: AAA_26; pfam13500 398578005590 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 398578005591 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 398578005592 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 398578005593 inhibitor-cofactor binding pocket; inhibition site 398578005594 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578005595 catalytic residue [active] 398578005596 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 398578005597 tetramerization interface [polypeptide binding]; other site 398578005598 active site 398578005599 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 398578005600 active site 398578005601 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 398578005602 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 398578005603 FeS/SAM binding site; other site 398578005604 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 398578005605 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 398578005606 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 398578005607 Uncharacterized conserved protein [Function unknown]; Region: COG1284 398578005608 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 398578005609 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 398578005610 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 398578005611 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 398578005612 active site 398578005613 HIGH motif; other site 398578005614 KMSKS motif; other site 398578005615 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 398578005616 anticodon binding site; other site 398578005617 tRNA binding surface [nucleotide binding]; other site 398578005618 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 398578005619 dimer interface [polypeptide binding]; other site 398578005620 putative tRNA-binding site [nucleotide binding]; other site 398578005621 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 398578005622 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 398578005623 nucleophile elbow; other site 398578005624 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 398578005625 Restriction endonuclease; Region: Mrr_cat; pfam04471 398578005626 antiporter inner membrane protein; Provisional; Region: PRK11670 398578005627 Domain of unknown function DUF59; Region: DUF59; pfam01883 398578005628 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 398578005629 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578005630 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 398578005631 dimerization interface [polypeptide binding]; other site 398578005632 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398578005633 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 398578005634 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 398578005635 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398578005636 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398578005637 N-carbamoylsarcosine amidohydrolase (CSHase) hydrolyzes N-carbamoylsarcosine to sarcosine, carbon dioxide and ammonia. CSHase is involved in one of the two alternative pathways for creatinine degradation to glycine in microorganisms.This...; Region: CSHase; cd01015 398578005638 Isochorismatase family; Region: Isochorismatase; pfam00857 398578005639 catalytic triad [active] 398578005640 substrate binding site [chemical binding]; other site 398578005641 domain interfaces; other site 398578005642 conserved cis-peptide bond; other site 398578005643 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 398578005644 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398578005645 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 398578005646 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398578005647 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 398578005648 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 398578005649 catalytic loop [active] 398578005650 iron binding site [ion binding]; other site 398578005651 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398578005652 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398578005653 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398578005654 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 398578005655 benzoate transport; Region: 2A0115; TIGR00895 398578005656 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 398578005657 putative substrate translocation pore; other site 398578005658 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 398578005659 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 398578005660 amidase catalytic site [active] 398578005661 Zn binding residues [ion binding]; other site 398578005662 substrate binding site [chemical binding]; other site 398578005663 Transcriptional regulators [Transcription]; Region: MarR; COG1846 398578005664 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 398578005665 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 398578005666 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 398578005667 putative dimer interface [polypeptide binding]; other site 398578005668 [2Fe-2S] cluster binding site [ion binding]; other site 398578005669 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398578005670 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 398578005671 SLBB domain; Region: SLBB; pfam10531 398578005672 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 398578005673 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 398578005674 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 398578005675 catalytic loop [active] 398578005676 iron binding site [ion binding]; other site 398578005677 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 398578005678 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 398578005679 [4Fe-4S] binding site [ion binding]; other site 398578005680 molybdopterin cofactor binding site; other site 398578005681 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 398578005682 molybdopterin cofactor binding site; other site 398578005683 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 398578005684 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 398578005685 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578005686 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578005687 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 398578005688 dimerization interface [polypeptide binding]; other site 398578005689 EamA-like transporter family; Region: EamA; pfam00892 398578005690 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 398578005691 EamA-like transporter family; Region: EamA; pfam00892 398578005692 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 398578005693 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 398578005694 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 398578005695 active site 398578005696 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578005697 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 398578005698 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 398578005699 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 398578005700 octamer interface [polypeptide binding]; other site 398578005701 active site 398578005702 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 398578005703 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398578005704 putative active site [active] 398578005705 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 398578005706 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 398578005707 putative active site [active] 398578005708 heme pocket [chemical binding]; other site 398578005709 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 398578005710 dimer interface [polypeptide binding]; other site 398578005711 phosphorylation site [posttranslational modification] 398578005712 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 398578005713 ATP binding site [chemical binding]; other site 398578005714 Mg2+ binding site [ion binding]; other site 398578005715 G-X-G motif; other site 398578005716 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 398578005717 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398578005718 substrate binding pocket [chemical binding]; other site 398578005719 membrane-bound complex binding site; other site 398578005720 hinge residues; other site 398578005721 Response regulator receiver domain; Region: Response_reg; pfam00072 398578005722 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 398578005723 active site 398578005724 phosphorylation site [posttranslational modification] 398578005725 intermolecular recognition site; other site 398578005726 dimerization interface [polypeptide binding]; other site 398578005727 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 398578005728 DNA binding residues [nucleotide binding] 398578005729 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398578005730 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 398578005731 active site 398578005732 phosphorylation site [posttranslational modification] 398578005733 intermolecular recognition site; other site 398578005734 dimerization interface [polypeptide binding]; other site 398578005735 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398578005736 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 398578005737 active site 398578005738 phosphorylation site [posttranslational modification] 398578005739 intermolecular recognition site; other site 398578005740 dimerization interface [polypeptide binding]; other site 398578005741 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 398578005742 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 398578005743 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 398578005744 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 398578005745 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 398578005746 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 398578005747 N-terminal plug; other site 398578005748 ligand-binding site [chemical binding]; other site 398578005749 Secretin and TonB N terminus short domain; Region: STN; smart00965 398578005750 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 398578005751 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 398578005752 N-terminal plug; other site 398578005753 ligand-binding site [chemical binding]; other site 398578005754 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398578005755 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 398578005756 conserved cys residue [active] 398578005757 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578005758 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578005759 HD domain protein, cyanamide hydratase family; Region: cyanamide_fam; TIGR03401 398578005760 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 398578005761 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398578005762 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 398578005763 active site 398578005764 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578005765 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 398578005766 CoA binding domain; Region: CoA_binding_2; pfam13380 398578005767 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 398578005768 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 398578005769 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398578005770 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398578005771 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578005772 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 398578005773 dimerization interface [polypeptide binding]; other site 398578005774 substrate binding pocket [chemical binding]; other site 398578005775 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 398578005776 putative substrate translocation pore; other site 398578005777 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578005778 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578005779 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 398578005780 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578005781 DNA-binding site [nucleotide binding]; DNA binding site 398578005782 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 398578005783 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578005784 homodimer interface [polypeptide binding]; other site 398578005785 catalytic residue [active] 398578005786 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 398578005787 EamA-like transporter family; Region: EamA; pfam00892 398578005788 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578005789 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578005790 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578005791 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 398578005792 putative dimerization interface [polypeptide binding]; other site 398578005793 putative substrate binding pocket [chemical binding]; other site 398578005794 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 398578005795 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578005796 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 398578005797 dimerization interface [polypeptide binding]; other site 398578005798 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 398578005799 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 398578005800 active site 398578005801 metal binding site [ion binding]; metal-binding site 398578005802 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 398578005803 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 398578005804 CoenzymeA binding site [chemical binding]; other site 398578005805 subunit interaction site [polypeptide binding]; other site 398578005806 PHB binding site; other site 398578005807 Transcriptional regulators [Transcription]; Region: MarR; COG1846 398578005808 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 398578005809 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398578005810 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 398578005811 Smr domain; Region: Smr; pfam01713 398578005812 hypothetical protein; Reviewed; Region: PRK00024 398578005813 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 398578005814 MPN+ (JAMM) motif; other site 398578005815 Zinc-binding site [ion binding]; other site 398578005816 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 398578005817 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 398578005818 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 398578005819 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 398578005820 FOG: CBS domain [General function prediction only]; Region: COG0517 398578005821 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 398578005822 seryl-tRNA synthetase; Provisional; Region: PRK05431 398578005823 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 398578005824 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 398578005825 dimer interface [polypeptide binding]; other site 398578005826 active site 398578005827 motif 1; other site 398578005828 motif 2; other site 398578005829 motif 3; other site 398578005830 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 398578005831 active site 398578005832 catalytic residues [active] 398578005833 DNA binding site [nucleotide binding] 398578005834 Int/Topo IB signature motif; other site 398578005835 H-NS histone family; Region: Histone_HNS; pfam00816 398578005836 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 398578005837 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 398578005838 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 398578005839 RecT family; Region: RecT; pfam03837 398578005840 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 398578005841 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 398578005842 non-specific DNA binding site [nucleotide binding]; other site 398578005843 salt bridge; other site 398578005844 Predicted transcriptional regulator [Transcription]; Region: COG2932 398578005845 sequence-specific DNA binding site [nucleotide binding]; other site 398578005846 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 398578005847 Catalytic site [active] 398578005848 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 398578005849 Walker A motif; other site 398578005850 ATP binding site [chemical binding]; other site 398578005851 Walker B motif; other site 398578005852 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 398578005853 RNA polymerase sigma factor, SigZ family; Region: SigZ; TIGR02959 398578005854 Phage terminase large subunit; Region: Terminase_3; cl12054 398578005855 tRNA synthetases class I (I, L, M and V); Region: tRNA-synt_1; pfam00133 398578005856 Fez1; Region: Fez1; pfam06818 398578005857 NUMOD4 motif; Region: NUMOD4; pfam07463 398578005858 HNH endonuclease; Region: HNH_3; pfam13392 398578005859 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 398578005860 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 398578005861 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 398578005862 H-NS histone family; Region: Histone_HNS; pfam00816 398578005863 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 398578005864 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 398578005865 dimerization interface [polypeptide binding]; other site 398578005866 PRC-barrel domain; Region: PRC; pfam05239 398578005867 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 398578005868 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 398578005869 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 398578005870 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398578005871 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578005872 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 398578005873 dimerization interface [polypeptide binding]; other site 398578005874 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578005875 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578005876 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 398578005877 dimerization interface [polypeptide binding]; other site 398578005878 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 398578005879 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 398578005880 Na binding site [ion binding]; other site 398578005881 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 398578005882 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 398578005883 active site 398578005884 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 398578005885 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 398578005886 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 398578005887 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398578005888 atypical (a) SDRs, subgroup 3; Region: SDR_a3; cd05229 398578005889 putative NAD(P) binding site [chemical binding]; other site 398578005890 putative active site [active] 398578005891 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578005892 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578005893 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 398578005894 dimerization interface [polypeptide binding]; other site 398578005895 Predicted membrane protein [Function unknown]; Region: COG2855 398578005896 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 398578005897 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 398578005898 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398578005899 PYR/PP interface [polypeptide binding]; other site 398578005900 dimer interface [polypeptide binding]; other site 398578005901 TPP binding site [chemical binding]; other site 398578005902 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 398578005903 Thiamine pyrophosphate (TPP) family, Xsc-like subfamily, TPP-binding module; composed of proteins similar to Alcaligenes defragrans sulfoacetaldehyde acetyltransferase (Xsc). Xsc plays a key role in the degradation of taurine, catalyzing the...; Region: TPP_Xsc_like; cd02013 398578005904 TPP-binding site; other site 398578005905 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398578005906 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 398578005907 Bacterial transcriptional regulator; Region: IclR; pfam01614 398578005908 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 398578005909 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 398578005910 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 398578005911 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 398578005912 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 398578005913 metal ion-dependent adhesion site (MIDAS); other site 398578005914 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 398578005915 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398578005916 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 398578005917 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 398578005918 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398578005919 Cu(I) binding site [ion binding]; other site 398578005920 PAS domain; Region: PAS_9; pfam13426 398578005921 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578005922 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578005923 metal binding site [ion binding]; metal-binding site 398578005924 active site 398578005925 I-site; other site 398578005926 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 398578005927 Low molecular weight phosphatase family; Region: LMWPc; cd00115 398578005928 active site 398578005929 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 398578005930 nitrite reductase subunit NirD; Provisional; Region: PRK14989 398578005931 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398578005932 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 398578005933 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 398578005934 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 398578005935 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 398578005936 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398578005937 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578005938 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 398578005939 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 398578005940 substrate binding pocket [chemical binding]; other site 398578005941 active site 398578005942 iron coordination sites [ion binding]; other site 398578005943 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 398578005944 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 398578005945 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 398578005946 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 398578005947 NADP binding site [chemical binding]; other site 398578005948 dimer interface [polypeptide binding]; other site 398578005949 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 398578005950 Helix-turn-helix domain; Region: HTH_18; pfam12833 398578005951 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 398578005952 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 398578005953 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 398578005954 substrate binding pocket [chemical binding]; other site 398578005955 active site 398578005956 iron coordination sites [ion binding]; other site 398578005957 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578005958 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398578005959 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 398578005960 trimer interface [polypeptide binding]; other site 398578005961 eyelet of channel; other site 398578005962 FtsX-like permease family; Region: FtsX; pfam02687 398578005963 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578005964 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578005965 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_7; cd08476 398578005966 putative effector binding pocket; other site 398578005967 putative dimerization interface [polypeptide binding]; other site 398578005968 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398578005969 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 398578005970 apolar tunnel; other site 398578005971 heme binding site [chemical binding]; other site 398578005972 dimerization interface [polypeptide binding]; other site 398578005973 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 398578005974 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398578005975 SnoaL-like domain; Region: SnoaL_2; pfam12680 398578005976 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 398578005977 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578005978 DNA-binding site [nucleotide binding]; DNA binding site 398578005979 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 398578005980 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 398578005981 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578005982 homodimer interface [polypeptide binding]; other site 398578005983 catalytic residue [active] 398578005984 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 398578005985 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 398578005986 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 398578005987 Transglycosylase SLT domain; Region: SLT_2; pfam13406 398578005988 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 398578005989 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398578005990 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 398578005991 NAD-dependent deacetylase; Provisional; Region: PRK05333 398578005992 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 398578005993 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 398578005994 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398578005995 Zn2+ binding site [ion binding]; other site 398578005996 Mg2+ binding site [ion binding]; other site 398578005997 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 398578005998 synthetase active site [active] 398578005999 metal binding site [ion binding]; metal-binding site 398578006000 NTP binding site [chemical binding]; other site 398578006001 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 398578006002 ACT domain; Region: ACT_4; pfam13291 398578006003 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 398578006004 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 398578006005 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 398578006006 catalytic site [active] 398578006007 G-X2-G-X-G-K; other site 398578006008 hypothetical protein; Provisional; Region: PRK11820 398578006009 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 398578006010 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 398578006011 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 398578006012 Catalytic domain of Protein Kinases; Region: PKc; cd00180 398578006013 active site 398578006014 ATP binding site [chemical binding]; other site 398578006015 substrate binding site [chemical binding]; other site 398578006016 activation loop (A-loop); other site 398578006017 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 398578006018 Protein phosphatase 2C; Region: PP2C; pfam00481 398578006019 active site 398578006020 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 398578006021 active site 398578006022 dimerization interface [polypeptide binding]; other site 398578006023 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 398578006024 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 398578006025 FeS/SAM binding site; other site 398578006026 HemN C-terminal domain; Region: HemN_C; pfam06969 398578006027 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 398578006028 Sporulation related domain; Region: SPOR; pfam05036 398578006029 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 398578006030 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 398578006031 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 398578006032 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398578006033 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 398578006034 NAD(P) binding site [chemical binding]; other site 398578006035 active site 398578006036 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578006037 DNA-binding site [nucleotide binding]; DNA binding site 398578006038 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 398578006039 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 398578006040 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 398578006041 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 398578006042 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 398578006043 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 398578006044 CoenzymeA binding site [chemical binding]; other site 398578006045 subunit interaction site [polypeptide binding]; other site 398578006046 PHB binding site; other site 398578006047 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 398578006048 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 398578006049 DNA binding residues [nucleotide binding] 398578006050 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 398578006051 classical (c) SDRs; Region: SDR_c; cd05233 398578006052 NAD(P) binding site [chemical binding]; other site 398578006053 active site 398578006054 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578006055 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578006056 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 398578006057 dimerization interface [polypeptide binding]; other site 398578006058 chaperone protein HchA; Provisional; Region: PRK04155 398578006059 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 398578006060 conserved cys residue [active] 398578006061 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 398578006062 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 398578006063 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 398578006064 dimerization interface [polypeptide binding]; other site 398578006065 putative DNA binding site [nucleotide binding]; other site 398578006066 putative Zn2+ binding site [ion binding]; other site 398578006067 Uncharacterized conserved protein [Function unknown]; Region: COG3832 398578006068 hydrophobic ligand binding site; other site 398578006069 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 398578006070 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 398578006071 oligomer interface [polypeptide binding]; other site 398578006072 active site residues [active] 398578006073 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 398578006074 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 398578006075 active site 398578006076 substrate binding site [chemical binding]; other site 398578006077 Mg2+ binding site [ion binding]; other site 398578006078 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398578006079 Protein of unknown function, DUF486; Region: DUF486; cl01236 398578006080 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398578006081 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 398578006082 active site 398578006083 phosphorylation site [posttranslational modification] 398578006084 intermolecular recognition site; other site 398578006085 dimerization interface [polypeptide binding]; other site 398578006086 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 398578006087 Walker A motif; other site 398578006088 ATP binding site [chemical binding]; other site 398578006089 Walker B motif; other site 398578006090 arginine finger; other site 398578006091 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 398578006092 dimer interface [polypeptide binding]; other site 398578006093 phosphorylation site [posttranslational modification] 398578006094 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 398578006095 ATP binding site [chemical binding]; other site 398578006096 G-X-G motif; other site 398578006097 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 398578006098 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 398578006099 putative ADP-binding pocket [chemical binding]; other site 398578006100 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398578006101 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 398578006102 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 398578006103 Walker A motif; other site 398578006104 ATP binding site [chemical binding]; other site 398578006105 Walker B motif; other site 398578006106 arginine finger; other site 398578006107 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398578006108 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 398578006109 Predicted membrane protein [Function unknown]; Region: COG4655 398578006110 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 398578006111 TadE-like protein; Region: TadE; pfam07811 398578006112 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 398578006113 TadE-like protein; Region: TadE; pfam07811 398578006114 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 398578006115 TPR repeat; Region: TPR_11; pfam13414 398578006116 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 398578006117 TPR motif; other site 398578006118 TPR repeat; Region: TPR_11; pfam13414 398578006119 binding surface 398578006120 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 398578006121 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398578006122 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 398578006123 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398578006124 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 398578006125 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 398578006126 ATP binding site [chemical binding]; other site 398578006127 Walker A motif; other site 398578006128 hexamer interface [polypeptide binding]; other site 398578006129 Walker B motif; other site 398578006130 AAA domain; Region: AAA_31; pfam13614 398578006131 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 398578006132 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 398578006133 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398578006134 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 398578006135 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 398578006136 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 398578006137 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 398578006138 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 398578006139 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 398578006140 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398578006141 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578006142 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 398578006143 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398578006144 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578006145 Walker A/P-loop; other site 398578006146 ATP binding site [chemical binding]; other site 398578006147 Q-loop/lid; other site 398578006148 ABC transporter signature motif; other site 398578006149 Walker B; other site 398578006150 D-loop; other site 398578006151 H-loop/switch region; other site 398578006152 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 398578006153 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398578006154 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398578006155 ligand binding site [chemical binding]; other site 398578006156 Ice-binding protein, left-handed beta-roll; Region: LbR_Ice_bind; cd12796 398578006157 putative water-binding motif; other site 398578006158 putative trimer interface [polypeptide binding]; other site 398578006159 Ice-binding protein, left-handed beta-roll; Region: LbR_Ice_bind; cd12796 398578006160 putative water-binding motif; other site 398578006161 putative trimer interface [polypeptide binding]; other site 398578006162 TPR repeat; Region: TPR_11; pfam13414 398578006163 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 398578006164 binding surface 398578006165 TPR motif; other site 398578006166 SnoaL-like domain; Region: SnoaL_3; pfam13474 398578006167 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 398578006168 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398578006169 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578006170 DNA-binding site [nucleotide binding]; DNA binding site 398578006171 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 398578006172 DNA-binding site [nucleotide binding]; DNA binding site 398578006173 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 398578006174 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 398578006175 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 398578006176 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 398578006177 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398578006178 classical (c) SDRs; Region: SDR_c; cd05233 398578006179 NAD(P) binding site [chemical binding]; other site 398578006180 active site 398578006181 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398578006182 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398578006183 NAD(P) binding site [chemical binding]; other site 398578006184 active site 398578006185 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 398578006186 benzoate transport; Region: 2A0115; TIGR00895 398578006187 putative substrate translocation pore; other site 398578006188 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 398578006189 active site 398578006190 catalytic site [active] 398578006191 Zn binding site [ion binding]; other site 398578006192 tetramer interface [polypeptide binding]; other site 398578006193 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 398578006194 hypothetical protein; Provisional; Region: PRK06102 398578006195 Amidase; Region: Amidase; cl11426 398578006196 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 398578006197 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 398578006198 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 398578006199 catalytic residues [active] 398578006200 catalytic nucleophile [active] 398578006201 Presynaptic Site I dimer interface [polypeptide binding]; other site 398578006202 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 398578006203 Synaptic Flat tetramer interface [polypeptide binding]; other site 398578006204 Synaptic Site I dimer interface [polypeptide binding]; other site 398578006205 DNA binding site [nucleotide binding] 398578006206 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 398578006207 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 398578006208 Walker A motif; other site 398578006209 ATP binding site [chemical binding]; other site 398578006210 Walker B motif; other site 398578006211 arginine finger; other site 398578006212 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 398578006213 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 398578006214 Replication initiation factor; Region: Rep_trans; pfam02486 398578006215 A-kinase anchor protein 110 kDa (AKAP 110); Region: AKAP_110; cl14906 398578006216 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 398578006217 sequence-specific DNA binding site [nucleotide binding]; other site 398578006218 salt bridge; other site 398578006219 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 398578006220 Malic enzyme, N-terminal domain; Region: malic; pfam00390 398578006221 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 398578006222 putative NAD(P) binding site [chemical binding]; other site 398578006223 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 398578006224 xanthine permease; Region: pbuX; TIGR03173 398578006225 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 398578006226 M20 Zn-peptidases include exopeptidases; Region: M20_like; cd02697 398578006227 putative metal binding site [ion binding]; other site 398578006228 putative bifunctional OHCU decarboxylase/allantoate amidohydrolase; Provisional; Region: PRK13590 398578006229 OHCU decarboxylase; Region: OHCU_decarbox; pfam09349 398578006230 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 398578006231 active site 398578006232 metal binding site [ion binding]; metal-binding site 398578006233 dimer interface [polypeptide binding]; other site 398578006234 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 398578006235 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 398578006236 active site 398578006237 catalytic site [active] 398578006238 tetramer interface [polypeptide binding]; other site 398578006239 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 398578006240 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578006241 DNA-binding site [nucleotide binding]; DNA binding site 398578006242 FCD domain; Region: FCD; pfam07729 398578006243 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578006244 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578006245 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 398578006246 putative effector binding pocket; other site 398578006247 putative dimerization interface [polypeptide binding]; other site 398578006248 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 398578006249 tartrate dehydrogenase; Region: TTC; TIGR02089 398578006250 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578006251 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 398578006252 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 398578006253 MOFRL family; Region: MOFRL; pfam05161 398578006254 transcriptional regulator; Provisional; Region: PRK10632 398578006255 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578006256 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 398578006257 putative effector binding pocket; other site 398578006258 dimerization interface [polypeptide binding]; other site 398578006259 glyoxylate carboligase; Provisional; Region: PRK11269 398578006260 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398578006261 PYR/PP interface [polypeptide binding]; other site 398578006262 dimer interface [polypeptide binding]; other site 398578006263 TPP binding site [chemical binding]; other site 398578006264 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 398578006265 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 398578006266 TPP-binding site [chemical binding]; other site 398578006267 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 398578006268 tartronate semialdehyde reductase; Provisional; Region: PRK15059 398578006269 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 398578006270 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 398578006271 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 398578006272 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 398578006273 active site 398578006274 homotetramer interface [polypeptide binding]; other site 398578006275 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 398578006276 putative amphipathic alpha helix; other site 398578006277 Arc-like DNA binding domain; Region: Arc; pfam03869 398578006278 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 398578006279 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 398578006280 XdhC Rossmann domain; Region: XdhC_C; pfam13478 398578006281 Protein of unknown function (DUF989); Region: DUF989; pfam06181 398578006282 Predicted membrane protein [Function unknown]; Region: COG3748 398578006283 Cytochrome c; Region: Cytochrom_C; pfam00034 398578006284 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 398578006285 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 398578006286 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578006287 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578006288 metal binding site [ion binding]; metal-binding site 398578006289 active site 398578006290 I-site; other site 398578006291 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398578006292 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 398578006293 putative switch regulator; other site 398578006294 non-specific DNA interactions [nucleotide binding]; other site 398578006295 DNA binding site [nucleotide binding] 398578006296 sequence specific DNA binding site [nucleotide binding]; other site 398578006297 putative cAMP binding site [chemical binding]; other site 398578006298 PAS domain; Region: PAS_9; pfam13426 398578006299 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 398578006300 putative active site [active] 398578006301 heme pocket [chemical binding]; other site 398578006302 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578006303 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578006304 metal binding site [ion binding]; metal-binding site 398578006305 active site 398578006306 I-site; other site 398578006307 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398578006308 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 398578006309 ligand binding site [chemical binding]; other site 398578006310 flexible hinge region; other site 398578006311 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 398578006312 non-specific DNA interactions [nucleotide binding]; other site 398578006313 DNA binding site [nucleotide binding] 398578006314 sequence specific DNA binding site [nucleotide binding]; other site 398578006315 putative cAMP binding site [chemical binding]; other site 398578006316 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578006317 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578006318 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 398578006319 dimerization interface [polypeptide binding]; other site 398578006320 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 398578006321 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 398578006322 Walker A/P-loop; other site 398578006323 ATP binding site [chemical binding]; other site 398578006324 Q-loop/lid; other site 398578006325 ABC transporter signature motif; other site 398578006326 Walker B; other site 398578006327 D-loop; other site 398578006328 H-loop/switch region; other site 398578006329 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 398578006330 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398578006331 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 398578006332 TM-ABC transporter signature motif; other site 398578006333 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 398578006334 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398578006335 TM-ABC transporter signature motif; other site 398578006336 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 398578006337 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 398578006338 putative ligand binding site [chemical binding]; other site 398578006339 HAMP domain; Region: HAMP; pfam00672 398578006340 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 398578006341 dimer interface [polypeptide binding]; other site 398578006342 phosphorylation site [posttranslational modification] 398578006343 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 398578006344 ATP binding site [chemical binding]; other site 398578006345 Mg2+ binding site [ion binding]; other site 398578006346 G-X-G motif; other site 398578006347 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 398578006348 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 398578006349 active site 398578006350 phosphorylation site [posttranslational modification] 398578006351 intermolecular recognition site; other site 398578006352 dimerization interface [polypeptide binding]; other site 398578006353 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 398578006354 DNA binding site [nucleotide binding] 398578006355 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 398578006356 active site triad [active] 398578006357 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 398578006358 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 398578006359 putative ligand binding site [chemical binding]; other site 398578006360 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 398578006361 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 398578006362 [2Fe-2S] cluster binding site [ion binding]; other site 398578006363 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 398578006364 hydrophobic ligand binding site; other site 398578006365 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 398578006366 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 398578006367 active site 398578006368 purine riboside binding site [chemical binding]; other site 398578006369 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 398578006370 HIT family signature motif; other site 398578006371 catalytic residue [active] 398578006372 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 398578006373 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 398578006374 putative ligand binding site [chemical binding]; other site 398578006375 guanine deaminase; Provisional; Region: PRK09228 398578006376 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 398578006377 active site 398578006378 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 398578006379 trimer interface [polypeptide binding]; other site 398578006380 active site 398578006381 L-aspartate oxidase; Provisional; Region: PRK06175 398578006382 L-aspartate oxidase; Provisional; Region: PRK09077 398578006383 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 398578006384 quinolinate synthetase; Provisional; Region: PRK09375 398578006385 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578006386 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578006387 metal binding site [ion binding]; metal-binding site 398578006388 active site 398578006389 I-site; other site 398578006390 ornithine cyclodeaminase; Validated; Region: PRK07340 398578006391 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 398578006392 Predicted metalloprotease [General function prediction only]; Region: COG2321 398578006393 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 398578006394 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 398578006395 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 398578006396 ATP binding site [chemical binding]; other site 398578006397 Mg++ binding site [ion binding]; other site 398578006398 motif III; other site 398578006399 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 398578006400 nucleotide binding region [chemical binding]; other site 398578006401 ATP-binding site [chemical binding]; other site 398578006402 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 398578006403 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 398578006404 active site 398578006405 metal binding site [ion binding]; metal-binding site 398578006406 Domain of unknown function DUF21; Region: DUF21; pfam01595 398578006407 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 398578006408 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 398578006409 Transporter associated domain; Region: CorC_HlyC; smart01091 398578006410 H-NS histone family; Region: Histone_HNS; pfam00816 398578006411 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 398578006412 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398578006413 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 398578006414 putative substrate translocation pore; other site 398578006415 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398578006416 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 398578006417 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398578006418 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 398578006419 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 398578006420 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 398578006421 DNA binding site [nucleotide binding] 398578006422 active site 398578006423 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 398578006424 AlkA N-terminal domain; Region: AlkA_N; cl05528 398578006425 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 398578006426 minor groove reading motif; other site 398578006427 helix-hairpin-helix signature motif; other site 398578006428 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 398578006429 kynureninase; Region: kynureninase; TIGR01814 398578006430 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398578006431 catalytic residue [active] 398578006432 Putative cyclase; Region: Cyclase; cl00814 398578006433 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 398578006434 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 398578006435 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578006436 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398578006437 LysE type translocator; Region: LysE; cl00565 398578006438 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 398578006439 homotrimer interaction site [polypeptide binding]; other site 398578006440 putative active site [active] 398578006441 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 398578006442 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 398578006443 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 398578006444 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578006445 homodimer interface [polypeptide binding]; other site 398578006446 catalytic residue [active] 398578006447 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 398578006448 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398578006449 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 398578006450 putative DNA binding site [nucleotide binding]; other site 398578006451 putative Zn2+ binding site [ion binding]; other site 398578006452 AsnC family; Region: AsnC_trans_reg; pfam01037 398578006453 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 398578006454 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 398578006455 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 398578006456 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 398578006457 G1 box; other site 398578006458 GTP/Mg2+ binding site [chemical binding]; other site 398578006459 Switch I region; other site 398578006460 G2 box; other site 398578006461 G3 box; other site 398578006462 Switch II region; other site 398578006463 G4 box; other site 398578006464 G5 box; other site 398578006465 Nucleoside recognition; Region: Gate; pfam07670 398578006466 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 398578006467 Nucleoside recognition; Region: Gate; pfam07670 398578006468 ornithine carbamoyltransferase; Provisional; Region: PRK00779 398578006469 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 398578006470 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 398578006471 acetylornithine aminotransferase; Provisional; Region: PRK02627 398578006472 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 398578006473 inhibitor-cofactor binding pocket; inhibition site 398578006474 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578006475 catalytic residue [active] 398578006476 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 398578006477 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 398578006478 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 398578006479 MviN-like protein; Region: MVIN; pfam03023 398578006480 Uncharacterized conserved protein [Function unknown]; Region: COG2912 398578006481 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 398578006482 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 398578006483 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 398578006484 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 398578006485 dimerization interface [polypeptide binding]; other site 398578006486 putative ATP binding site [chemical binding]; other site 398578006487 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 398578006488 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 398578006489 Walker A motif; other site 398578006490 ATP binding site [chemical binding]; other site 398578006491 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 398578006492 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 398578006493 poly(A) polymerase; Region: pcnB; TIGR01942 398578006494 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 398578006495 active site 398578006496 NTP binding site [chemical binding]; other site 398578006497 metal binding triad [ion binding]; metal-binding site 398578006498 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 398578006499 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 398578006500 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 398578006501 catalytic center binding site [active] 398578006502 ATP binding site [chemical binding]; other site 398578006503 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 398578006504 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 398578006505 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 398578006506 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578006507 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 398578006508 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 398578006509 catalytic loop [active] 398578006510 iron binding site [ion binding]; other site 398578006511 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 398578006512 FAD binding pocket [chemical binding]; other site 398578006513 FAD binding motif [chemical binding]; other site 398578006514 phosphate binding motif [ion binding]; other site 398578006515 beta-alpha-beta structure motif; other site 398578006516 NAD binding pocket [chemical binding]; other site 398578006517 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398578006518 NAD(P) binding site [chemical binding]; other site 398578006519 active site 398578006520 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398578006521 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 398578006522 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-II; Region: Lumazine_synthase-II; cd09208 398578006523 active site 398578006524 homopentamer interface [polypeptide binding]; other site 398578006525 dimer interface [polypeptide binding]; other site 398578006526 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398578006527 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 398578006528 dimerization interface [polypeptide binding]; other site 398578006529 ligand binding site [chemical binding]; other site 398578006530 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578006531 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578006532 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 398578006533 putative effector binding pocket; other site 398578006534 dimerization interface [polypeptide binding]; other site 398578006535 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 398578006536 NADH(P)-binding; Region: NAD_binding_10; pfam13460 398578006537 NAD binding site [chemical binding]; other site 398578006538 substrate binding site [chemical binding]; other site 398578006539 putative active site [active] 398578006540 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 398578006541 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398578006542 putative arabinose transporter; Provisional; Region: PRK03545 398578006543 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 398578006544 putative substrate translocation pore; other site 398578006545 putative cyanate transporter; Provisional; Region: cynX; PRK09705 398578006546 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 398578006547 nucleoside/Zn binding site; other site 398578006548 dimer interface [polypeptide binding]; other site 398578006549 catalytic motif [active] 398578006550 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578006551 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578006552 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 398578006553 dimerization interface [polypeptide binding]; other site 398578006554 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578006555 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398578006556 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398578006557 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 398578006558 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398578006559 FAD binding site [chemical binding]; other site 398578006560 substrate binding pocket [chemical binding]; other site 398578006561 catalytic base [active] 398578006562 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398578006563 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578006564 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 398578006565 dimerization interface [polypeptide binding]; other site 398578006566 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 398578006567 LrgA family; Region: LrgA; pfam03788 398578006568 cysteine synthase B; Region: cysM; TIGR01138 398578006569 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 398578006570 dimer interface [polypeptide binding]; other site 398578006571 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578006572 catalytic residue [active] 398578006573 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 398578006574 nudix motif; other site 398578006575 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 398578006576 CPxP motif; other site 398578006577 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 398578006578 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 398578006579 active site 398578006580 tetramer interface; other site 398578006581 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 398578006582 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398578006583 active site 398578006584 HIGH motif; other site 398578006585 nucleotide binding site [chemical binding]; other site 398578006586 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 398578006587 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 398578006588 active site 398578006589 KMSKS motif; other site 398578006590 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 398578006591 tRNA binding surface [nucleotide binding]; other site 398578006592 anticodon binding site; other site 398578006593 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 398578006594 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398578006595 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 398578006596 Zn binding site [ion binding]; other site 398578006597 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 398578006598 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 398578006599 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 398578006600 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 398578006601 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 398578006602 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 398578006603 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578006604 DNA-binding site [nucleotide binding]; DNA binding site 398578006605 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 398578006606 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578006607 homodimer interface [polypeptide binding]; other site 398578006608 catalytic residue [active] 398578006609 Uncharacterized conserved protein [Function unknown]; Region: COG2353 398578006610 YceI-like domain; Region: YceI; smart00867 398578006611 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 398578006612 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 398578006613 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 398578006614 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 398578006615 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 398578006616 active site 398578006617 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 398578006618 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 398578006619 domain interfaces; other site 398578006620 active site 398578006621 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 398578006622 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 398578006623 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 398578006624 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 398578006625 transcriptional activator FlhC; Provisional; Region: PRK12722 398578006626 Flagellar transcriptional activator (FlhD); Region: FlhD; pfam05247 398578006627 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 398578006628 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 398578006629 active site residue [active] 398578006630 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 398578006631 active site residue [active] 398578006632 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 398578006633 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 398578006634 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 398578006635 [2Fe-2S] cluster binding site [ion binding]; other site 398578006636 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 398578006637 alpha subunit interface [polypeptide binding]; other site 398578006638 active site 398578006639 substrate binding site [chemical binding]; other site 398578006640 Fe binding site [ion binding]; other site 398578006641 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 398578006642 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 398578006643 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 398578006644 substrate binding pocket [chemical binding]; other site 398578006645 chain length determination region; other site 398578006646 substrate-Mg2+ binding site; other site 398578006647 catalytic residues [active] 398578006648 aspartate-rich region 1; other site 398578006649 active site lid residues [active] 398578006650 aspartate-rich region 2; other site 398578006651 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 398578006652 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 398578006653 TPP-binding site; other site 398578006654 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 398578006655 PYR/PP interface [polypeptide binding]; other site 398578006656 dimer interface [polypeptide binding]; other site 398578006657 TPP binding site [chemical binding]; other site 398578006658 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398578006659 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 398578006660 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 398578006661 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 398578006662 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 398578006663 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 398578006664 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 398578006665 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398578006666 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 398578006667 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 398578006668 catalytic loop [active] 398578006669 iron binding site [ion binding]; other site 398578006670 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398578006671 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 398578006672 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 398578006673 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398578006674 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 398578006675 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 398578006676 MoxR-like ATPases [General function prediction only]; Region: COG0714 398578006677 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 398578006678 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 398578006679 putative hydrophobic ligand binding site [chemical binding]; other site 398578006680 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 398578006681 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 398578006682 XdhC Rossmann domain; Region: XdhC_C; pfam13478 398578006683 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 398578006684 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398578006685 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 398578006686 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578006687 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 398578006688 Protein export membrane protein; Region: SecD_SecF; cl14618 398578006689 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 398578006690 Protein export membrane protein; Region: SecD_SecF; cl14618 398578006691 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398578006692 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578006693 Walker A/P-loop; other site 398578006694 ATP binding site [chemical binding]; other site 398578006695 ABC transporter; Region: ABC_tran; pfam00005 398578006696 Q-loop/lid; other site 398578006697 ABC transporter signature motif; other site 398578006698 Walker B; other site 398578006699 D-loop; other site 398578006700 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 398578006701 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 398578006702 active site 398578006703 phosphorylation site [posttranslational modification] 398578006704 intermolecular recognition site; other site 398578006705 dimerization interface [polypeptide binding]; other site 398578006706 LytTr DNA-binding domain; Region: LytTR; smart00850 398578006707 Histidine kinase; Region: His_kinase; pfam06580 398578006708 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 398578006709 ATP binding site [chemical binding]; other site 398578006710 Mg2+ binding site [ion binding]; other site 398578006711 G-X-G motif; other site 398578006712 2TM domain; Region: 2TM; pfam13239 398578006713 Predicted membrane protein (DUF2306); Region: DUF2306; pfam10067 398578006714 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 398578006715 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 398578006716 N-terminal plug; other site 398578006717 ligand-binding site [chemical binding]; other site 398578006718 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 398578006719 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 398578006720 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 398578006721 psiF repeat; Region: PsiF_repeat; pfam07769 398578006722 psiF repeat; Region: PsiF_repeat; pfam07769 398578006723 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 398578006724 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 398578006725 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 398578006726 acyl-activating enzyme (AAE) consensus motif; other site 398578006727 putative AMP binding site [chemical binding]; other site 398578006728 putative active site [active] 398578006729 putative CoA binding site [chemical binding]; other site 398578006730 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398578006731 MarR family; Region: MarR_2; pfam12802 398578006732 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398578006733 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 398578006734 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 398578006735 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 398578006736 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 398578006737 MutS domain I; Region: MutS_I; pfam01624 398578006738 MutS domain II; Region: MutS_II; pfam05188 398578006739 MutS domain III; Region: MutS_III; pfam05192 398578006740 MutS domain V; Region: MutS_V; pfam00488 398578006741 Walker A/P-loop; other site 398578006742 ATP binding site [chemical binding]; other site 398578006743 Q-loop/lid; other site 398578006744 ABC transporter signature motif; other site 398578006745 Walker B; other site 398578006746 D-loop; other site 398578006747 H-loop/switch region; other site 398578006748 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398578006749 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 398578006750 non-specific DNA binding site [nucleotide binding]; other site 398578006751 salt bridge; other site 398578006752 sequence-specific DNA binding site [nucleotide binding]; other site 398578006753 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 398578006754 non-specific DNA binding site [nucleotide binding]; other site 398578006755 salt bridge; other site 398578006756 sequence-specific DNA binding site [nucleotide binding]; other site 398578006757 Phosphoinositide 3-kinase (PI3K)-like family, catalytic domain; The PI3K-like catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: PI3Kc_like; cl00119 398578006758 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 398578006759 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398578006760 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578006761 DNA-binding site [nucleotide binding]; DNA binding site 398578006762 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 398578006763 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578006764 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 398578006765 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 398578006766 acetolactate synthase catalytic subunit; Validated; Region: PRK06112 398578006767 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398578006768 PYR/PP interface [polypeptide binding]; other site 398578006769 dimer interface [polypeptide binding]; other site 398578006770 TPP binding site [chemical binding]; other site 398578006771 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 398578006772 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 398578006773 TPP-binding site [chemical binding]; other site 398578006774 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 398578006775 classical (c) SDRs; Region: SDR_c; cd05233 398578006776 NAD(P) binding site [chemical binding]; other site 398578006777 active site 398578006778 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 398578006779 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 398578006780 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398578006781 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 398578006782 ArsC family; Region: ArsC; pfam03960 398578006783 catalytic residues [active] 398578006784 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 398578006785 dimerization interface [polypeptide binding]; other site 398578006786 putative DNA binding site [nucleotide binding]; other site 398578006787 putative Zn2+ binding site [ion binding]; other site 398578006788 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 398578006789 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 398578006790 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 398578006791 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 398578006792 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 398578006793 S-adenosylmethionine binding site [chemical binding]; other site 398578006794 short chain dehydrogenase; Provisional; Region: PRK12744 398578006795 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398578006796 NAD(P) binding site [chemical binding]; other site 398578006797 active site 398578006798 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578006799 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578006800 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 398578006801 putative effector binding pocket; other site 398578006802 putative dimerization interface [polypeptide binding]; other site 398578006803 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 398578006804 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 398578006805 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 398578006806 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 398578006807 active site 398578006808 catalytic triad [active] 398578006809 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 398578006810 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 398578006811 Walker A motif; other site 398578006812 ATP binding site [chemical binding]; other site 398578006813 Walker B motif; other site 398578006814 arginine finger; other site 398578006815 HTH domain; Region: HTH_11; pfam08279 398578006816 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 398578006817 metal ion-dependent adhesion site (MIDAS); other site 398578006818 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398578006819 active site 398578006820 ATP binding site [chemical binding]; other site 398578006821 substrate binding site [chemical binding]; other site 398578006822 activation loop (A-loop); other site 398578006823 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398578006824 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 398578006825 non-specific DNA binding site [nucleotide binding]; other site 398578006826 salt bridge; other site 398578006827 sequence-specific DNA binding site [nucleotide binding]; other site 398578006828 helix_turn_helix, Arsenical Resistance Operon Repressor; Region: HTH_ARSR; smart00418 398578006829 putative DNA binding site [nucleotide binding]; other site 398578006830 elongation factor G; Reviewed; Region: PRK00007 398578006831 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 398578006832 G1 box; other site 398578006833 putative GEF interaction site [polypeptide binding]; other site 398578006834 GTP/Mg2+ binding site [chemical binding]; other site 398578006835 Switch I region; other site 398578006836 G2 box; other site 398578006837 G3 box; other site 398578006838 Switch II region; other site 398578006839 G4 box; other site 398578006840 G5 box; other site 398578006841 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 398578006842 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 398578006843 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 398578006844 Winged helix-turn helix; Region: HTH_29; pfam13551 398578006845 Homeodomain-like domain; Region: HTH_23; cl17451 398578006846 Integrase core domain; Region: rve; pfam00665 398578006847 Integrase core domain; Region: rve_3; pfam13683 398578006848 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 398578006849 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 398578006850 active site 398578006851 dimerization interface [polypeptide binding]; other site 398578006852 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 398578006853 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 398578006854 serine O-acetyltransferase; Region: cysE; TIGR01172 398578006855 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 398578006856 trimer interface [polypeptide binding]; other site 398578006857 active site 398578006858 substrate binding site [chemical binding]; other site 398578006859 CoA binding site [chemical binding]; other site 398578006860 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 398578006861 putative FMN binding site [chemical binding]; other site 398578006862 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 398578006863 ThiC-associated domain; Region: ThiC-associated; pfam13667 398578006864 ThiC family; Region: ThiC; pfam01964 398578006865 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398578006866 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 398578006867 trimer interface [polypeptide binding]; other site 398578006868 eyelet of channel; other site 398578006869 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398578006870 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 398578006871 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398578006872 Walker A/P-loop; other site 398578006873 ATP binding site [chemical binding]; other site 398578006874 Q-loop/lid; other site 398578006875 ABC transporter signature motif; other site 398578006876 Walker B; other site 398578006877 D-loop; other site 398578006878 H-loop/switch region; other site 398578006879 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 398578006880 FtsX-like permease family; Region: FtsX; pfam02687 398578006881 macrolide transporter subunit MacA; Provisional; Region: PRK11578 398578006882 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398578006883 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578006884 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398578006885 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 398578006886 putative ligand binding site [chemical binding]; other site 398578006887 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398578006888 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 398578006889 non-specific DNA binding site [nucleotide binding]; other site 398578006890 salt bridge; other site 398578006891 sequence-specific DNA binding site [nucleotide binding]; other site 398578006892 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 398578006893 MPT binding site; other site 398578006894 trimer interface [polypeptide binding]; other site 398578006895 Protein of unknown function (DUF615); Region: DUF615; pfam04751 398578006896 peptidase PmbA; Provisional; Region: PRK11040 398578006897 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 398578006898 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 398578006899 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398578006900 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578006901 dimer interface [polypeptide binding]; other site 398578006902 putative CheW interface [polypeptide binding]; other site 398578006903 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 398578006904 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398578006905 PrkA family serine protein kinase; Provisional; Region: PRK15455 398578006906 AAA ATPase domain; Region: AAA_16; pfam13191 398578006907 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 398578006908 hypothetical protein; Provisional; Region: PRK05325 398578006909 SpoVR family protein; Provisional; Region: PRK11767 398578006910 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 398578006911 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 398578006912 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 398578006913 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 398578006914 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 398578006915 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398578006916 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 398578006917 DNA binding residues [nucleotide binding] 398578006918 dimerization interface [polypeptide binding]; other site 398578006919 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578006920 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578006921 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 398578006922 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 398578006923 EamA-like transporter family; Region: EamA; pfam00892 398578006924 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 398578006925 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 398578006926 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 398578006927 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 398578006928 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 398578006929 succinic semialdehyde dehydrogenase; Region: PLN02278 398578006930 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 398578006931 tetramerization interface [polypeptide binding]; other site 398578006932 NAD(P) binding site [chemical binding]; other site 398578006933 catalytic residues [active] 398578006934 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 398578006935 galactarate dehydratase; Region: galactar-dH20; TIGR03248 398578006936 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 398578006937 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 398578006938 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 398578006939 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578006940 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 398578006941 dimerization interface [polypeptide binding]; other site 398578006942 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 398578006943 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 398578006944 catalytic loop [active] 398578006945 iron binding site [ion binding]; other site 398578006946 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 398578006947 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398578006948 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398578006949 glutathione reductase; Validated; Region: PRK06116 398578006950 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398578006951 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398578006952 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 398578006953 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 398578006954 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 398578006955 putative active site [active] 398578006956 putative metal binding site [ion binding]; other site 398578006957 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 398578006958 PQQ-like domain; Region: PQQ_2; pfam13360 398578006959 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 398578006960 tartrate dehydrogenase; Region: TTC; TIGR02089 398578006961 transcriptional activator TtdR; Provisional; Region: PRK09801 398578006962 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578006963 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 398578006964 putative effector binding pocket; other site 398578006965 putative dimerization interface [polypeptide binding]; other site 398578006966 Yqey-like protein; Region: YqeY; pfam09424 398578006967 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 398578006968 HI0933-like protein; Region: HI0933_like; pfam03486 398578006969 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 398578006970 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398578006971 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 398578006972 substrate binding pocket [chemical binding]; other site 398578006973 membrane-bound complex binding site; other site 398578006974 hinge residues; other site 398578006975 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398578006976 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 398578006977 dimer interface [polypeptide binding]; other site 398578006978 phosphorylation site [posttranslational modification] 398578006979 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 398578006980 ATP binding site [chemical binding]; other site 398578006981 Mg2+ binding site [ion binding]; other site 398578006982 G-X-G motif; other site 398578006983 Response regulator receiver domain; Region: Response_reg; pfam00072 398578006984 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 398578006985 active site 398578006986 phosphorylation site [posttranslational modification] 398578006987 intermolecular recognition site; other site 398578006988 dimerization interface [polypeptide binding]; other site 398578006989 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 398578006990 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 398578006991 substrate binding pocket [chemical binding]; other site 398578006992 membrane-bound complex binding site; other site 398578006993 hinge residues; other site 398578006994 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 398578006995 active site 398578006996 SAM binding site [chemical binding]; other site 398578006997 homodimer interface [polypeptide binding]; other site 398578006998 glycosyl transferase family protein; Provisional; Region: PRK08136 398578006999 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 398578007000 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 398578007001 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 398578007002 [4Fe-4S] binding site [ion binding]; other site 398578007003 molybdopterin cofactor binding site; other site 398578007004 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 398578007005 molybdopterin cofactor binding site; other site 398578007006 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 398578007007 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 398578007008 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398578007009 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 398578007010 PAS domain; Region: PAS_9; pfam13426 398578007011 putative active site [active] 398578007012 heme pocket [chemical binding]; other site 398578007013 HAMP domain; Region: HAMP; pfam00672 398578007014 dimerization interface [polypeptide binding]; other site 398578007015 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398578007016 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578007017 dimer interface [polypeptide binding]; other site 398578007018 putative CheW interface [polypeptide binding]; other site 398578007019 FOG: CBS domain [General function prediction only]; Region: COG0517 398578007020 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 398578007021 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 398578007022 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 398578007023 Walker A/P-loop; other site 398578007024 ATP binding site [chemical binding]; other site 398578007025 Q-loop/lid; other site 398578007026 ABC transporter signature motif; other site 398578007027 Walker B; other site 398578007028 D-loop; other site 398578007029 H-loop/switch region; other site 398578007030 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 398578007031 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 398578007032 dimer interface [polypeptide binding]; other site 398578007033 conserved gate region; other site 398578007034 putative PBP binding loops; other site 398578007035 ABC-ATPase subunit interface; other site 398578007036 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 398578007037 NMT1-like family; Region: NMT1_2; pfam13379 398578007038 Nitrate and nitrite sensing; Region: NIT; pfam08376 398578007039 ANTAR domain; Region: ANTAR; pfam03861 398578007040 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578007041 metal binding site [ion binding]; metal-binding site 398578007042 active site 398578007043 I-site; other site 398578007044 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 398578007045 UGMP family protein; Validated; Region: PRK09604 398578007046 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 398578007047 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 398578007048 This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins. sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa; Region: ACD_sHsps_p23-like; cd00298 398578007049 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398578007050 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 398578007051 putative ligand binding site [chemical binding]; other site 398578007052 Transglycosylase SLT domain; Region: SLT_2; pfam13406 398578007053 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 398578007054 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398578007055 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 398578007056 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 398578007057 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 398578007058 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 398578007059 Protein of unknown function DUF58; Region: DUF58; pfam01882 398578007060 MoxR-like ATPases [General function prediction only]; Region: COG0714 398578007061 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 398578007062 Walker A motif; other site 398578007063 ATP binding site [chemical binding]; other site 398578007064 Walker B motif; other site 398578007065 arginine finger; other site 398578007066 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 398578007067 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 398578007068 putative active site [active] 398578007069 Zn binding site [ion binding]; other site 398578007070 enoyl-CoA hydratase; Validated; Region: PRK08139 398578007071 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 398578007072 substrate binding site [chemical binding]; other site 398578007073 oxyanion hole (OAH) forming residues; other site 398578007074 trimer interface [polypeptide binding]; other site 398578007075 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398578007076 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 398578007077 Ligand binding site [chemical binding]; other site 398578007078 Electron transfer flavoprotein domain; Region: ETF; pfam01012 398578007079 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 398578007080 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 398578007081 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 398578007082 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398578007083 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 398578007084 putative ligand binding site [chemical binding]; other site 398578007085 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 398578007086 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 398578007087 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578007088 active site 398578007089 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 398578007090 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 398578007091 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 398578007092 FMN binding site [chemical binding]; other site 398578007093 substrate binding site [chemical binding]; other site 398578007094 putative catalytic residue [active] 398578007095 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 398578007096 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398578007097 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 398578007098 Walker A/P-loop; other site 398578007099 ATP binding site [chemical binding]; other site 398578007100 Q-loop/lid; other site 398578007101 ABC transporter signature motif; other site 398578007102 Walker B; other site 398578007103 D-loop; other site 398578007104 H-loop/switch region; other site 398578007105 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578007106 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 398578007107 Walker A/P-loop; other site 398578007108 ATP binding site [chemical binding]; other site 398578007109 Q-loop/lid; other site 398578007110 ABC transporter signature motif; other site 398578007111 Walker B; other site 398578007112 D-loop; other site 398578007113 H-loop/switch region; other site 398578007114 Cytochrome bd-type quinol oxidase, subunit 1 [Energy production and conversion]; Region: CydA; COG1271 398578007115 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 398578007116 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 398578007117 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 398578007118 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 398578007119 Predicted transcriptional regulators [Transcription]; Region: COG1510 398578007120 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 398578007121 putative DNA binding site [nucleotide binding]; other site 398578007122 putative Zn2+ binding site [ion binding]; other site 398578007123 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 398578007124 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 398578007125 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 398578007126 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 398578007127 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 398578007128 FeS/SAM binding site; other site 398578007129 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578007130 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578007131 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 398578007132 putative dimerization interface [polypeptide binding]; other site 398578007133 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 398578007134 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 398578007135 active site pocket [active] 398578007136 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578007137 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 398578007138 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578007139 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 398578007140 dimerization interface [polypeptide binding]; other site 398578007141 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 398578007142 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 398578007143 substrate binding pocket [chemical binding]; other site 398578007144 membrane-bound complex binding site; other site 398578007145 hinge residues; other site 398578007146 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 398578007147 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 398578007148 Walker A/P-loop; other site 398578007149 ATP binding site [chemical binding]; other site 398578007150 Q-loop/lid; other site 398578007151 ABC transporter signature motif; other site 398578007152 Walker B; other site 398578007153 D-loop; other site 398578007154 H-loop/switch region; other site 398578007155 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 398578007156 Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP); Region: HEPD; cd08182 398578007157 putative active site [active] 398578007158 metal binding site [ion binding]; metal-binding site 398578007159 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 398578007160 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 398578007161 motif II; other site 398578007162 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 398578007163 S-formylglutathione hydrolase; Region: PLN02442 398578007164 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 398578007165 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 398578007166 substrate binding site [chemical binding]; other site 398578007167 catalytic Zn binding site [ion binding]; other site 398578007168 NAD binding site [chemical binding]; other site 398578007169 structural Zn binding site [ion binding]; other site 398578007170 dimer interface [polypeptide binding]; other site 398578007171 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398578007172 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 398578007173 conserved cys residue [active] 398578007174 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578007175 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578007176 helicase 45; Provisional; Region: PTZ00424 398578007177 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 398578007178 ATP binding site [chemical binding]; other site 398578007179 Mg++ binding site [ion binding]; other site 398578007180 motif III; other site 398578007181 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 398578007182 nucleotide binding region [chemical binding]; other site 398578007183 ATP-binding site [chemical binding]; other site 398578007184 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398578007185 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 398578007186 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 398578007187 Protein export membrane protein; Region: SecD_SecF; cl14618 398578007188 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398578007189 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398578007190 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578007191 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 398578007192 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 398578007193 dimer interface [polypeptide binding]; other site 398578007194 active site 398578007195 citrylCoA binding site [chemical binding]; other site 398578007196 NADH binding [chemical binding]; other site 398578007197 cationic pore residues; other site 398578007198 oxalacetate/citrate binding site [chemical binding]; other site 398578007199 coenzyme A binding site [chemical binding]; other site 398578007200 catalytic triad [active] 398578007201 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 398578007202 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 398578007203 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 398578007204 L-aspartate oxidase; Provisional; Region: PRK06175 398578007205 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 398578007206 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 398578007207 SdhC subunit interface [polypeptide binding]; other site 398578007208 proximal heme binding site [chemical binding]; other site 398578007209 cardiolipin binding site; other site 398578007210 Iron-sulfur protein interface; other site 398578007211 proximal quinone binding site [chemical binding]; other site 398578007212 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 398578007213 Iron-sulfur protein interface; other site 398578007214 proximal quinone binding site [chemical binding]; other site 398578007215 SdhD (CybS) interface [polypeptide binding]; other site 398578007216 proximal heme binding site [chemical binding]; other site 398578007217 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 398578007218 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578007219 DNA-binding site [nucleotide binding]; DNA binding site 398578007220 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 398578007221 malate dehydrogenase; Provisional; Region: PRK05442 398578007222 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 398578007223 NAD(P) binding site [chemical binding]; other site 398578007224 dimer interface [polypeptide binding]; other site 398578007225 malate binding site [chemical binding]; other site 398578007226 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 398578007227 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 398578007228 S-adenosylmethionine binding site [chemical binding]; other site 398578007229 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 398578007230 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 398578007231 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 398578007232 substrate binding site [chemical binding]; other site 398578007233 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 398578007234 substrate binding site [chemical binding]; other site 398578007235 ligand binding site [chemical binding]; other site 398578007236 Antitoxin ParD; Region: ParD; pfam09386 398578007237 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 398578007238 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 398578007239 AAA domain; Region: AAA_33; pfam13671 398578007240 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398578007241 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 398578007242 non-specific DNA binding site [nucleotide binding]; other site 398578007243 salt bridge; other site 398578007244 sequence-specific DNA binding site [nucleotide binding]; other site 398578007245 aconitate hydratase; Provisional; Region: acnA; PRK12881 398578007246 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 398578007247 substrate binding site [chemical binding]; other site 398578007248 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 398578007249 ligand binding site [chemical binding]; other site 398578007250 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 398578007251 substrate binding site [chemical binding]; other site 398578007252 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 398578007253 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578007254 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 398578007255 dimerization interface [polypeptide binding]; other site 398578007256 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578007257 active site 398578007258 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578007259 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398578007260 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398578007261 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 398578007262 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 398578007263 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 398578007264 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 398578007265 4Fe-4S binding domain; Region: Fer4_5; pfam12801 398578007266 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 398578007267 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 398578007268 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578007269 Winged helix-turn helix; Region: HTH_29; pfam13551 398578007270 Homeodomain-like domain; Region: HTH_23; cl17451 398578007271 Integrase core domain; Region: rve; pfam00665 398578007272 Integrase core domain; Region: rve_3; pfam13683 398578007273 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 398578007274 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 398578007275 N-terminal plug; other site 398578007276 ligand-binding site [chemical binding]; other site 398578007277 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 398578007278 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578007279 DNA-binding site [nucleotide binding]; DNA binding site 398578007280 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 398578007281 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578007282 homodimer interface [polypeptide binding]; other site 398578007283 catalytic residue [active] 398578007284 basic leucine zipper DNA-binding and multimerization region of GCN4 and related proteins; Region: B_zip1; cl02576 398578007285 putative protease; Provisional; Region: PRK15452 398578007286 Peptidase family U32; Region: Peptidase_U32; pfam01136 398578007287 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578007288 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578007289 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 398578007290 dimerization interface [polypeptide binding]; other site 398578007291 RF-1 domain; Region: RF-1; cl17422 398578007292 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 398578007293 hypothetical protein; Reviewed; Region: PRK09588 398578007294 Uncharacterized protein family UPF0027; Region: UPF0027; cl17455 398578007295 TonB C terminal; Region: TonB_2; pfam13103 398578007296 TolA protein; Region: tolA_full; TIGR02794 398578007297 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 398578007298 TolR protein; Region: tolR; TIGR02801 398578007299 TolQ protein; Region: tolQ; TIGR02796 398578007300 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 398578007301 active site 398578007302 aminotransferase; Validated; Region: PRK07337 398578007303 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 398578007304 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578007305 homodimer interface [polypeptide binding]; other site 398578007306 catalytic residue [active] 398578007307 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 398578007308 putative RNA binding site [nucleotide binding]; other site 398578007309 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 398578007310 homopentamer interface [polypeptide binding]; other site 398578007311 active site 398578007312 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 398578007313 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 398578007314 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 398578007315 dimerization interface [polypeptide binding]; other site 398578007316 active site 398578007317 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 398578007318 catalytic loop [active] 398578007319 iron binding site [ion binding]; other site 398578007320 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 398578007321 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398578007322 NAD(P) binding site [chemical binding]; other site 398578007323 active site 398578007324 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 398578007325 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 398578007326 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 398578007327 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 398578007328 GTP/Mg2+ binding site [chemical binding]; other site 398578007329 G4 box; other site 398578007330 G5 box; other site 398578007331 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 398578007332 G1 box; other site 398578007333 G1 box; other site 398578007334 GTP/Mg2+ binding site [chemical binding]; other site 398578007335 Switch I region; other site 398578007336 G2 box; other site 398578007337 G2 box; other site 398578007338 Switch I region; other site 398578007339 G3 box; other site 398578007340 G3 box; other site 398578007341 Switch II region; other site 398578007342 Switch II region; other site 398578007343 G4 box; other site 398578007344 G5 box; other site 398578007345 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 398578007346 PAS domain; Region: PAS_9; pfam13426 398578007347 putative active site [active] 398578007348 heme pocket [chemical binding]; other site 398578007349 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578007350 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578007351 metal binding site [ion binding]; metal-binding site 398578007352 active site 398578007353 I-site; other site 398578007354 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 398578007355 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 398578007356 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 398578007357 metal binding site [ion binding]; metal-binding site 398578007358 putative dimer interface [polypeptide binding]; other site 398578007359 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 398578007360 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 398578007361 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 398578007362 active site 398578007363 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 398578007364 enterobactin exporter EntS; Provisional; Region: PRK10489 398578007365 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 398578007366 putative substrate translocation pore; other site 398578007367 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 398578007368 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 398578007369 putative active site [active] 398578007370 catalytic site [active] 398578007371 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 398578007372 putative active site [active] 398578007373 catalytic site [active] 398578007374 META domain; Region: META; pfam03724 398578007375 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 398578007376 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 398578007377 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 398578007378 Peptidase family M23; Region: Peptidase_M23; pfam01551 398578007379 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 398578007380 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 398578007381 Methyltransferase domain; Region: Methyltransf_12; pfam08242 398578007382 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 398578007383 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398578007384 active site 398578007385 HIGH motif; other site 398578007386 nucleotide binding site [chemical binding]; other site 398578007387 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 398578007388 KMSKS motif; other site 398578007389 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 398578007390 Dehydroquinase class II; Region: DHquinase_II; pfam01220 398578007391 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 398578007392 trimer interface [polypeptide binding]; other site 398578007393 active site 398578007394 dimer interface [polypeptide binding]; other site 398578007395 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398578007396 hypothetical protein; Provisional; Region: PRK09256 398578007397 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 398578007398 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 398578007399 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 398578007400 putative active site [active] 398578007401 metal binding site [ion binding]; metal-binding site 398578007402 Predicted esterase [General function prediction only]; Region: COG0400 398578007403 putative hydrolase; Provisional; Region: PRK11460 398578007404 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 398578007405 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398578007406 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 398578007407 putative DNA binding site [nucleotide binding]; other site 398578007408 putative Zn2+ binding site [ion binding]; other site 398578007409 AsnC family; Region: AsnC_trans_reg; pfam01037 398578007410 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 398578007411 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 398578007412 dimer interface [polypeptide binding]; other site 398578007413 TPP-binding site [chemical binding]; other site 398578007414 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 398578007415 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398578007416 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398578007417 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398578007418 Cytochrome c; Region: Cytochrom_C; pfam00034 398578007419 Cytochrome c [Energy production and conversion]; Region: COG3258 398578007420 Cytochrome c; Region: Cytochrom_C; pfam00034 398578007421 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 398578007422 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578007423 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578007424 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 398578007425 dimerization interface [polypeptide binding]; other site 398578007426 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 398578007427 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 398578007428 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398578007429 putative active site [active] 398578007430 putative metal binding site [ion binding]; other site 398578007431 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 398578007432 substrate binding site [chemical binding]; other site 398578007433 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 398578007434 substrate binding site [chemical binding]; other site 398578007435 TPR repeat; Region: TPR_11; pfam13414 398578007436 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 398578007437 binding surface 398578007438 TPR motif; other site 398578007439 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 398578007440 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 398578007441 active site 398578007442 HIGH motif; other site 398578007443 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 398578007444 KMSKS motif; other site 398578007445 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 398578007446 tRNA binding surface [nucleotide binding]; other site 398578007447 anticodon binding site; other site 398578007448 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 398578007449 endonuclease III; Region: ENDO3c; smart00478 398578007450 minor groove reading motif; other site 398578007451 helix-hairpin-helix signature motif; other site 398578007452 substrate binding pocket [chemical binding]; other site 398578007453 active site 398578007454 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 398578007455 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 398578007456 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 398578007457 Ligand Binding Site [chemical binding]; other site 398578007458 TilS substrate binding domain; Region: TilS; pfam09179 398578007459 aspartate kinase; Reviewed; Region: PRK06635 398578007460 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 398578007461 putative nucleotide binding site [chemical binding]; other site 398578007462 putative catalytic residues [active] 398578007463 putative Mg ion binding site [ion binding]; other site 398578007464 putative aspartate binding site [chemical binding]; other site 398578007465 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 398578007466 putative allosteric regulatory site; other site 398578007467 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 398578007468 putative allosteric regulatory residue; other site 398578007469 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 398578007470 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 398578007471 active site 398578007472 uracil binding [chemical binding]; other site 398578007473 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 398578007474 guanine deaminase; Region: guan_deamin; TIGR02967 398578007475 active site 398578007476 xanthine permease; Region: pbuX; TIGR03173 398578007477 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 398578007478 RNA binding surface [nucleotide binding]; other site 398578007479 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 398578007480 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398578007481 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 398578007482 dimer interface [polypeptide binding]; other site 398578007483 phosphorylation site [posttranslational modification] 398578007484 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 398578007485 ATP binding site [chemical binding]; other site 398578007486 Mg2+ binding site [ion binding]; other site 398578007487 G-X-G motif; other site 398578007488 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398578007489 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 398578007490 active site 398578007491 phosphorylation site [posttranslational modification] 398578007492 intermolecular recognition site; other site 398578007493 dimerization interface [polypeptide binding]; other site 398578007494 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 398578007495 DNA binding site [nucleotide binding] 398578007496 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 398578007497 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 398578007498 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 398578007499 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 398578007500 RHS Repeat; Region: RHS_repeat; pfam05593 398578007501 RHS Repeat; Region: RHS_repeat; pfam05593 398578007502 RHS Repeat; Region: RHS_repeat; cl11982 398578007503 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 398578007504 RHS protein; Region: RHS; pfam03527 398578007505 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 398578007506 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 398578007507 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 398578007508 SGNH_hydrolase subfamily, similar to the putative arylesterase/acylhydrolase from the rumen anaerobe Prevotella bryantii XynE. The P. bryantii XynE gene is located in a xylanase gene cluster. SGNH hydrolases are a diverse family of lipases and esterases; Region: XynE_like; cd01830 398578007509 active site 398578007510 catalytic triad [active] 398578007511 oxyanion hole [active] 398578007512 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 398578007513 dimerization interface [polypeptide binding]; other site 398578007514 putative DNA binding site [nucleotide binding]; other site 398578007515 putative Zn2+ binding site [ion binding]; other site 398578007516 PAS domain; Region: PAS; smart00091 398578007517 PAS fold; Region: PAS_4; pfam08448 398578007518 Uncharacterized protein conserved in archaea (DUF2111); Region: DUF2111; cl01667 398578007519 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 398578007520 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 398578007521 Walker A motif; other site 398578007522 ATP binding site [chemical binding]; other site 398578007523 Walker B motif; other site 398578007524 arginine finger; other site 398578007525 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398578007526 Domain of unknown function (DUF4272); Region: DUF4272; pfam14094 398578007527 Protein of unknown function (DUF3620); Region: DUF3620; pfam12281 398578007528 putative Cro-like protein; Region: PHA00542 398578007529 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 398578007530 Catalytic site [active] 398578007531 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578007532 AAA domain; Region: AAA_21; pfam13304 398578007533 Walker A/P-loop; other site 398578007534 ATP binding site [chemical binding]; other site 398578007535 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578007536 Walker B; other site 398578007537 D-loop; other site 398578007538 H-loop/switch region; other site 398578007539 Transposase; Region: HTH_Tnp_1; cl17663 398578007540 Integrase core domain; Region: rve_3; cl15866 398578007541 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398578007542 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 398578007543 trimer interface [polypeptide binding]; other site 398578007544 eyelet of channel; other site 398578007545 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398578007546 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 398578007547 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578007548 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578007549 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578007550 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 398578007551 putative dimerization interface [polypeptide binding]; other site 398578007552 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398578007553 FMN reductase, MsuE subfamily; Region: FMN_reduc_MsuE; TIGR03566 398578007554 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 398578007555 methionine synthase; Provisional; Region: PRK01207 398578007556 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 398578007557 substrate binding site [chemical binding]; other site 398578007558 THF binding site; other site 398578007559 zinc-binding site [ion binding]; other site 398578007560 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398578007561 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria; Region: PBP1_SBP_like_2; cd06328 398578007562 putative ligand binding site [chemical binding]; other site 398578007563 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398578007564 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 398578007565 Walker A/P-loop; other site 398578007566 ATP binding site [chemical binding]; other site 398578007567 Q-loop/lid; other site 398578007568 ABC transporter signature motif; other site 398578007569 Walker B; other site 398578007570 D-loop; other site 398578007571 H-loop/switch region; other site 398578007572 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 398578007573 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 398578007574 Walker A/P-loop; other site 398578007575 ATP binding site [chemical binding]; other site 398578007576 Q-loop/lid; other site 398578007577 ABC transporter signature motif; other site 398578007578 Walker B; other site 398578007579 D-loop; other site 398578007580 H-loop/switch region; other site 398578007581 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 398578007582 TM-ABC transporter signature motif; other site 398578007583 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 398578007584 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 398578007585 TM-ABC transporter signature motif; other site 398578007586 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 398578007587 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398578007588 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398578007589 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 398578007590 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 398578007591 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 398578007592 active site residue [active] 398578007593 putative inner membrane protein; Provisional; Region: PRK11099 398578007594 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 398578007595 active site residue [active] 398578007596 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 398578007597 active site residue [active] 398578007598 ferrochelatase; Reviewed; Region: hemH; PRK00035 398578007599 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 398578007600 C-terminal domain interface [polypeptide binding]; other site 398578007601 active site 398578007602 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 398578007603 active site 398578007604 N-terminal domain interface [polypeptide binding]; other site 398578007605 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 398578007606 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 398578007607 active site 398578007608 motif II; other site 398578007609 Predicted integral membrane protein (DUF2189); Region: DUF2189; pfam09955 398578007610 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 398578007611 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578007612 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 398578007613 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 398578007614 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 398578007615 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398578007616 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578007617 DNA-binding site [nucleotide binding]; DNA binding site 398578007618 FCD domain; Region: FCD; pfam07729 398578007619 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578007620 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 398578007621 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 398578007622 catalytic residues [active] 398578007623 substrate binding pocket [chemical binding]; other site 398578007624 substrate-Mg2+ binding site; other site 398578007625 aspartate-rich region 1; other site 398578007626 aspartate-rich region 2; other site 398578007627 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 398578007628 active site lid residues [active] 398578007629 substrate binding pocket [chemical binding]; other site 398578007630 catalytic residues [active] 398578007631 substrate-Mg2+ binding site; other site 398578007632 aspartate-rich region 1; other site 398578007633 aspartate-rich region 2; other site 398578007634 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398578007635 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398578007636 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578007637 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398578007638 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 398578007639 active site 398578007640 DNA binding site [nucleotide binding] 398578007641 Int/Topo IB signature motif; other site 398578007642 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 398578007643 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398578007644 non-specific DNA binding site [nucleotide binding]; other site 398578007645 salt bridge; other site 398578007646 sequence-specific DNA binding site [nucleotide binding]; other site 398578007647 HipA N-terminal domain; Region: Couple_hipA; pfam13657 398578007648 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 398578007649 HipA-like N-terminal domain; Region: HipA_N; pfam07805 398578007650 HipA-like C-terminal domain; Region: HipA_C; pfam07804 398578007651 Helix-turn-helix domain; Region: HTH_17; cl17695 398578007652 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 398578007653 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 398578007654 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398578007655 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 398578007656 non-specific DNA binding site [nucleotide binding]; other site 398578007657 salt bridge; other site 398578007658 sequence-specific DNA binding site [nucleotide binding]; other site 398578007659 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 398578007660 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 398578007661 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 398578007662 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 398578007663 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 398578007664 Phage tail tube protein FII; Region: Phage_tube; pfam04985 398578007665 major tail sheath protein; Provisional; Region: FI; PHA02560 398578007666 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 398578007667 Baseplate J-like protein; Region: Baseplate_J; cl01294 398578007668 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 398578007669 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 398578007670 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 398578007671 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 398578007672 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 398578007673 catalytic residue [active] 398578007674 Phage Tail Protein X; Region: Phage_tail_X; cl02088 398578007675 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 398578007676 active site 398578007677 DNA binding site [nucleotide binding] 398578007678 Int/Topo IB signature motif; other site 398578007679 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 398578007680 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398578007681 non-specific DNA binding site [nucleotide binding]; other site 398578007682 salt bridge; other site 398578007683 sequence-specific DNA binding site [nucleotide binding]; other site 398578007684 HipA N-terminal domain; Region: Couple_hipA; pfam13657 398578007685 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 398578007686 HipA-like N-terminal domain; Region: HipA_N; pfam07805 398578007687 HipA-like C-terminal domain; Region: HipA_C; pfam07804 398578007688 Helix-turn-helix domain; Region: HTH_17; cl17695 398578007689 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 398578007690 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 398578007691 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398578007692 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 398578007693 non-specific DNA binding site [nucleotide binding]; other site 398578007694 salt bridge; other site 398578007695 sequence-specific DNA binding site [nucleotide binding]; other site 398578007696 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 398578007697 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 398578007698 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 398578007699 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 398578007700 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 398578007701 Phage tail tube protein FII; Region: Phage_tube; pfam04985 398578007702 major tail sheath protein; Provisional; Region: FI; PHA02560 398578007703 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 398578007704 Baseplate J-like protein; Region: Baseplate_J; cl01294 398578007705 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 398578007706 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 398578007707 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 398578007708 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 398578007709 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 398578007710 catalytic residue [active] 398578007711 Phage Tail Protein X; Region: Phage_tail_X; cl02088 398578007712 trigger factor; Provisional; Region: tig; PRK01490 398578007713 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 398578007714 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 398578007715 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 398578007716 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 398578007717 oligomer interface [polypeptide binding]; other site 398578007718 active site residues [active] 398578007719 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 398578007720 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 398578007721 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 398578007722 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 398578007723 Walker A motif; other site 398578007724 ATP binding site [chemical binding]; other site 398578007725 Walker B motif; other site 398578007726 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 398578007727 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 398578007728 Found in ATP-dependent protease La (LON); Region: LON; smart00464 398578007729 Found in ATP-dependent protease La (LON); Region: LON; smart00464 398578007730 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 398578007731 Walker A motif; other site 398578007732 ATP binding site [chemical binding]; other site 398578007733 Walker B motif; other site 398578007734 arginine finger; other site 398578007735 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 398578007736 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 398578007737 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 398578007738 glutamate racemase; Provisional; Region: PRK00865 398578007739 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398578007740 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398578007741 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 398578007742 S-adenosylmethionine binding site [chemical binding]; other site 398578007743 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 398578007744 Fumarase C-terminus; Region: Fumerase_C; pfam05683 398578007745 fumarate hydratase; Reviewed; Region: fumC; PRK00485 398578007746 Class II fumarases; Region: Fumarase_classII; cd01362 398578007747 active site 398578007748 tetramer interface [polypeptide binding]; other site 398578007749 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 398578007750 Putative esterase; Region: Esterase; pfam00756 398578007751 S-formylglutathione hydrolase; Region: PLN02442 398578007752 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 398578007753 Transcriptional regulators [Transcription]; Region: MarR; COG1846 398578007754 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 398578007755 Protein of unknown function (DUF3334); Region: DUF3334; pfam11813 398578007756 Putative ParB-like nuclease; Region: ParBc_2; cl17538 398578007757 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 398578007758 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 398578007759 Sulfate transporter family; Region: Sulfate_transp; pfam00916 398578007760 Sulfate transporter family; Region: Sulfate_transp; pfam00916 398578007761 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 398578007762 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398578007763 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398578007764 DNA binding site [nucleotide binding] 398578007765 domain linker motif; other site 398578007766 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_4; cd06280 398578007767 putative ligand binding site [chemical binding]; other site 398578007768 putative dimerization interface [polypeptide binding]; other site 398578007769 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 398578007770 active site 398578007771 phosphorylation site [posttranslational modification] 398578007772 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 398578007773 dimerization domain swap beta strand [polypeptide binding]; other site 398578007774 regulatory protein interface [polypeptide binding]; other site 398578007775 active site 398578007776 regulatory phosphorylation site [posttranslational modification]; other site 398578007777 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 398578007778 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 398578007779 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 398578007780 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 398578007781 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 398578007782 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 398578007783 putative substrate binding site [chemical binding]; other site 398578007784 putative ATP binding site [chemical binding]; other site 398578007785 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 398578007786 active site 398578007787 P-loop; other site 398578007788 phosphorylation site [posttranslational modification] 398578007789 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 398578007790 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 398578007791 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 398578007792 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 398578007793 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 398578007794 dimer interface [polypeptide binding]; other site 398578007795 conserved gate region; other site 398578007796 putative PBP binding loops; other site 398578007797 ABC-ATPase subunit interface; other site 398578007798 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 398578007799 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 398578007800 Walker A/P-loop; other site 398578007801 ATP binding site [chemical binding]; other site 398578007802 Q-loop/lid; other site 398578007803 ABC transporter signature motif; other site 398578007804 Walker B; other site 398578007805 D-loop; other site 398578007806 H-loop/switch region; other site 398578007807 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 398578007808 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 398578007809 FAD binding site [chemical binding]; other site 398578007810 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 398578007811 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 398578007812 Helix-turn-helix domain; Region: HTH_28; pfam13518 398578007813 putative transposase OrfB; Reviewed; Region: PHA02517 398578007814 HTH-like domain; Region: HTH_21; pfam13276 398578007815 Integrase core domain; Region: rve; pfam00665 398578007816 Integrase core domain; Region: rve_2; pfam13333 398578007817 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 398578007818 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 398578007819 NAD binding site [chemical binding]; other site 398578007820 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 398578007821 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 398578007822 dimer interface [polypeptide binding]; other site 398578007823 conserved gate region; other site 398578007824 ABC-ATPase subunit interface; other site 398578007825 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 398578007826 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 398578007827 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 398578007828 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 398578007829 Walker A/P-loop; other site 398578007830 ATP binding site [chemical binding]; other site 398578007831 Q-loop/lid; other site 398578007832 ABC transporter signature motif; other site 398578007833 Walker B; other site 398578007834 D-loop; other site 398578007835 H-loop/switch region; other site 398578007836 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 398578007837 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578007838 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 398578007839 dimerization interface [polypeptide binding]; other site 398578007840 LysE type translocator; Region: LysE; cl00565 398578007841 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 398578007842 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 398578007843 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 398578007844 multiple promoter invertase; Provisional; Region: mpi; PRK13413 398578007845 catalytic residues [active] 398578007846 catalytic nucleophile [active] 398578007847 Presynaptic Site I dimer interface [polypeptide binding]; other site 398578007848 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 398578007849 Synaptic Flat tetramer interface [polypeptide binding]; other site 398578007850 Synaptic Site I dimer interface [polypeptide binding]; other site 398578007851 DNA binding site [nucleotide binding] 398578007852 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 398578007853 DNA-binding interface [nucleotide binding]; DNA binding site 398578007854 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398578007855 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398578007856 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398578007857 Walker A/P-loop; other site 398578007858 ATP binding site [chemical binding]; other site 398578007859 Q-loop/lid; other site 398578007860 ABC transporter signature motif; other site 398578007861 Walker B; other site 398578007862 D-loop; other site 398578007863 H-loop/switch region; other site 398578007864 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 398578007865 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 398578007866 FtsX-like permease family; Region: FtsX; pfam02687 398578007867 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398578007868 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398578007869 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578007870 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578007871 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578007872 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398578007873 Protein of unknown function (DUF461); Region: DUF461; pfam04314 398578007874 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 398578007875 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 398578007876 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 398578007877 VirB7 interaction site; other site 398578007878 conjugal transfer protein TrbF; Provisional; Region: PRK13872 398578007879 conjugal transfer protein TrbL; Provisional; Region: PRK13875 398578007880 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 398578007881 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 398578007882 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 398578007883 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 398578007884 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 398578007885 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 398578007886 Type IV secretory pathway, TrbD component [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TrbD; COG5268 398578007887 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 398578007888 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 398578007889 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 398578007890 ATP binding site [chemical binding]; other site 398578007891 Walker A motif; other site 398578007892 hexamer interface [polypeptide binding]; other site 398578007893 Walker B motif; other site 398578007894 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 398578007895 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 398578007896 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 398578007897 Walker A motif; other site 398578007898 ATP binding site [chemical binding]; other site 398578007899 Walker B motif; other site 398578007900 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578007901 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578007902 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 398578007903 dimerization interface [polypeptide binding]; other site 398578007904 substrate binding pocket [chemical binding]; other site 398578007905 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 398578007906 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 398578007907 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 398578007908 Sulfatase; Region: Sulfatase; pfam00884 398578007909 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 398578007910 active site 398578007911 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 398578007912 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 398578007913 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 398578007914 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398578007915 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578007916 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 398578007917 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 398578007918 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 398578007919 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 398578007920 dimer interface [polypeptide binding]; other site 398578007921 phosphorylation site [posttranslational modification] 398578007922 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 398578007923 Mg2+ binding site [ion binding]; other site 398578007924 G-X-G motif; other site 398578007925 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398578007926 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 398578007927 active site 398578007928 phosphorylation site [posttranslational modification] 398578007929 intermolecular recognition site; other site 398578007930 dimerization interface [polypeptide binding]; other site 398578007931 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 398578007932 DNA binding site [nucleotide binding] 398578007933 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 398578007934 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 398578007935 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 398578007936 FAD binding pocket [chemical binding]; other site 398578007937 FAD binding motif [chemical binding]; other site 398578007938 phosphate binding motif [ion binding]; other site 398578007939 beta-alpha-beta structure motif; other site 398578007940 NAD binding pocket [chemical binding]; other site 398578007941 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 398578007942 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 398578007943 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 398578007944 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 398578007945 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 398578007946 ParA-like protein; Provisional; Region: PHA02518 398578007947 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 398578007948 P-loop; other site 398578007949 Magnesium ion binding site [ion binding]; other site 398578007950 Replication initiator protein A; Region: RPA; pfam10134 398578007951 Helix-turn-helix domain; Region: HTH_17; cl17695 398578007952 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 398578007953 DNA binding site [nucleotide binding] 398578007954 active site 398578007955 Int/Topo IB signature motif; other site 398578007956 catalytic residues [active] 398578007957 Putative phage integrase; Region: Phage_Integr_2; pfam13009 398578007958 DNA binding site [nucleotide binding] 398578007959 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 398578007960 active site 398578007961 Int/Topo IB signature motif; other site 398578007962 Uncharacterized conserved protein (DUF2285); Region: DUF2285; pfam10074 398578007963 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 398578007964 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 398578007965 non-specific DNA binding site [nucleotide binding]; other site 398578007966 salt bridge; other site 398578007967 sequence-specific DNA binding site [nucleotide binding]; other site 398578007968 Uncharacterized conserved protein [Function unknown]; Region: COG5489 398578007969 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398578007970 Coenzyme A binding pocket [chemical binding]; other site 398578007971 ParB-like nuclease domain; Region: ParB; smart00470 398578007972 Domain of unknown function (DUF932); Region: DUF932; pfam06067 398578007973 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 398578007974 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 398578007975 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 398578007976 Prokaryotic E2 family A; Region: Prok-E2_A; pfam14457 398578007977 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 398578007978 ATP binding site [chemical binding]; other site 398578007979 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 398578007980 WYL domain; Region: WYL; pfam13280 398578007981 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 398578007982 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 398578007983 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 398578007984 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 398578007985 active site 398578007986 Int/Topo IB signature motif; other site 398578007987 DNA binding site [nucleotide binding] 398578007988 hypothetical protein; Provisional; Region: PRK05208 398578007989 acetyl-CoA synthetase; Provisional; Region: PRK00174 398578007990 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 398578007991 active site 398578007992 CoA binding site [chemical binding]; other site 398578007993 acyl-activating enzyme (AAE) consensus motif; other site 398578007994 AMP binding site [chemical binding]; other site 398578007995 acetate binding site [chemical binding]; other site 398578007996 Cytochrome c; Region: Cytochrom_C; cl11414 398578007997 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398578007998 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 398578007999 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398578008000 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398578008001 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578008002 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 398578008003 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398578008004 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 398578008005 dimer interface [polypeptide binding]; other site 398578008006 phosphorylation site [posttranslational modification] 398578008007 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 398578008008 ATP binding site [chemical binding]; other site 398578008009 Mg2+ binding site [ion binding]; other site 398578008010 G-X-G motif; other site 398578008011 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398578008012 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 398578008013 active site 398578008014 phosphorylation site [posttranslational modification] 398578008015 intermolecular recognition site; other site 398578008016 dimerization interface [polypeptide binding]; other site 398578008017 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 398578008018 DNA binding site [nucleotide binding] 398578008019 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 398578008020 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 398578008021 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 398578008022 heme binding site [chemical binding]; other site 398578008023 ferroxidase pore; other site 398578008024 ferroxidase diiron center [ion binding]; other site 398578008025 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 398578008026 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 398578008027 substrate binding site [chemical binding]; other site 398578008028 oxyanion hole (OAH) forming residues; other site 398578008029 trimer interface [polypeptide binding]; other site 398578008030 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 398578008031 CoA binding domain; Region: CoA_binding_2; pfam13380 398578008032 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 398578008033 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 398578008034 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 398578008035 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398578008036 putative substrate translocation pore; other site 398578008037 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 398578008038 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 398578008039 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578008040 active site 398578008041 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 398578008042 MarR family; Region: MarR; pfam01047 398578008043 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 398578008044 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 398578008045 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578008046 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 398578008047 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398578008048 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578008049 DNA-binding site [nucleotide binding]; DNA binding site 398578008050 FCD domain; Region: FCD; pfam07729 398578008051 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 398578008052 enoyl-CoA hydratase; Provisional; Region: PRK06144 398578008053 substrate binding site [chemical binding]; other site 398578008054 oxyanion hole (OAH) forming residues; other site 398578008055 trimer interface [polypeptide binding]; other site 398578008056 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578008057 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398578008058 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398578008059 malonyl-CoA synthase; Validated; Region: PRK07514 398578008060 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 398578008061 acyl-activating enzyme (AAE) consensus motif; other site 398578008062 active site 398578008063 AMP binding site [chemical binding]; other site 398578008064 CoA binding site [chemical binding]; other site 398578008065 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 398578008066 Ligand Binding Site [chemical binding]; other site 398578008067 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 398578008068 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 398578008069 metal-binding site [ion binding] 398578008070 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398578008071 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 398578008072 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 398578008073 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 398578008074 Low-spin heme binding site [chemical binding]; other site 398578008075 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 398578008076 Putative water exit pathway; other site 398578008077 Binuclear center (active site) [active] 398578008078 Putative proton exit pathway; other site 398578008079 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 398578008080 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 398578008081 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 398578008082 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 398578008083 Cytochrome c; Region: Cytochrom_C; pfam00034 398578008084 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 398578008085 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 398578008086 4Fe-4S binding domain; Region: Fer4_5; pfam12801 398578008087 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 398578008088 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 398578008089 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 398578008090 ligand binding site [chemical binding]; other site 398578008091 flexible hinge region; other site 398578008092 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 398578008093 putative switch regulator; other site 398578008094 non-specific DNA interactions [nucleotide binding]; other site 398578008095 DNA binding site [nucleotide binding] 398578008096 sequence specific DNA binding site [nucleotide binding]; other site 398578008097 putative cAMP binding site [chemical binding]; other site 398578008098 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 398578008099 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 398578008100 FeS/SAM binding site; other site 398578008101 HemN C-terminal domain; Region: HemN_C; pfam06969 398578008102 Family description; Region: DsbD_2; pfam13386 398578008103 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 398578008104 HD domain; Region: HD_5; pfam13487 398578008105 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398578008106 PAS domain; Region: PAS; smart00091 398578008107 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398578008108 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 398578008109 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578008110 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578008111 metal binding site [ion binding]; metal-binding site 398578008112 active site 398578008113 I-site; other site 398578008114 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 398578008115 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 398578008116 Cell division protein ZapA; Region: ZapA; pfam05164 398578008117 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 398578008118 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 398578008119 catalytic triad [active] 398578008120 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 398578008121 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 398578008122 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 398578008123 intersubunit interface [polypeptide binding]; other site 398578008124 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 398578008125 FecCD transport family; Region: FecCD; pfam01032 398578008126 putative PBP binding regions; other site 398578008127 ABC-ATPase subunit interface; other site 398578008128 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 398578008129 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578008130 Walker A/P-loop; other site 398578008131 ATP binding site [chemical binding]; other site 398578008132 Q-loop/lid; other site 398578008133 ABC transporter signature motif; other site 398578008134 Walker B; other site 398578008135 D-loop; other site 398578008136 H-loop/switch region; other site 398578008137 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; cl17810 398578008138 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 398578008139 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 398578008140 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 398578008141 putative active site [active] 398578008142 hypothetical protein; Provisional; Region: PRK07483 398578008143 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 398578008144 inhibitor-cofactor binding pocket; inhibition site 398578008145 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578008146 catalytic residue [active] 398578008147 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 398578008148 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398578008149 substrate binding pocket [chemical binding]; other site 398578008150 membrane-bound complex binding site; other site 398578008151 hinge residues; other site 398578008152 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 398578008153 Mycobacterium tuberculosis PIN domain family; Region: Mtu_PIN_fam; TIGR00028 398578008154 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; pfam01177 398578008155 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 398578008156 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 398578008157 homodimer interface [polypeptide binding]; other site 398578008158 Walker A motif; other site 398578008159 ATP binding site [chemical binding]; other site 398578008160 hydroxycobalamin binding site [chemical binding]; other site 398578008161 Walker B motif; other site 398578008162 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 398578008163 FMN binding site [chemical binding]; other site 398578008164 dimer interface [polypeptide binding]; other site 398578008165 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 398578008166 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 398578008167 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 398578008168 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398578008169 catalytic residue [active] 398578008170 cobyric acid synthase; Provisional; Region: PRK00784 398578008171 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 398578008172 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 398578008173 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 398578008174 catalytic triad [active] 398578008175 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 398578008176 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; cl10029 398578008177 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 398578008178 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 398578008179 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 398578008180 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398578008181 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 398578008182 putative NAD(P) binding site [chemical binding]; other site 398578008183 active site 398578008184 putative substrate binding site [chemical binding]; other site 398578008185 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 398578008186 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 398578008187 putative substrate translocation pore; other site 398578008188 putative aldolase; Validated; Region: PRK08130 398578008189 intersubunit interface [polypeptide binding]; other site 398578008190 active site 398578008191 Zn2+ binding site [ion binding]; other site 398578008192 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398578008193 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578008194 DNA-binding site [nucleotide binding]; DNA binding site 398578008195 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 398578008196 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 398578008197 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 398578008198 putative dimer interface [polypeptide binding]; other site 398578008199 active site pocket [active] 398578008200 putative cataytic base [active] 398578008201 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 398578008202 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578008203 DNA-binding site [nucleotide binding]; DNA binding site 398578008204 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 398578008205 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578008206 homodimer interface [polypeptide binding]; other site 398578008207 catalytic residue [active] 398578008208 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 398578008209 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 398578008210 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578008211 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578008212 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 398578008213 putative dimerization interface [polypeptide binding]; other site 398578008214 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578008215 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398578008216 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 398578008217 DNA binding residues [nucleotide binding] 398578008218 dimerization interface [polypeptide binding]; other site 398578008219 Protein of unknown function (DUF3237); Region: DUF3237; pfam11578 398578008220 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 398578008221 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 398578008222 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 398578008223 minor groove reading motif; other site 398578008224 helix-hairpin-helix signature motif; other site 398578008225 substrate binding pocket [chemical binding]; other site 398578008226 active site 398578008227 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 398578008228 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 398578008229 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 398578008230 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578008231 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578008232 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 398578008233 dimerization interface [polypeptide binding]; other site 398578008234 amidase; Provisional; Region: PRK07486 398578008235 Amidase; Region: Amidase; cl11426 398578008236 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578008237 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 398578008238 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 398578008239 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578008240 homodimer interface [polypeptide binding]; other site 398578008241 catalytic residue [active] 398578008242 SlyX; Region: SlyX; pfam04102 398578008243 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 398578008244 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 398578008245 amidohydrolase; Region: amidohydrolases; TIGR01891 398578008246 putative metal binding site [ion binding]; other site 398578008247 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 398578008248 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578008249 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578008250 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 398578008251 dimerization interface [polypeptide binding]; other site 398578008252 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 398578008253 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 398578008254 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578008255 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 398578008256 dimerization interface [polypeptide binding]; other site 398578008257 Lysine efflux permease [General function prediction only]; Region: COG1279 398578008258 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398578008259 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 398578008260 putative DNA binding site [nucleotide binding]; other site 398578008261 putative Zn2+ binding site [ion binding]; other site 398578008262 AsnC family; Region: AsnC_trans_reg; pfam01037 398578008263 threonine and homoserine efflux system; Provisional; Region: PRK10532 398578008264 EamA-like transporter family; Region: EamA; pfam00892 398578008265 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 398578008266 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 398578008267 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 398578008268 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 398578008269 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578008270 DNA-binding site [nucleotide binding]; DNA binding site 398578008271 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 398578008272 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578008273 homodimer interface [polypeptide binding]; other site 398578008274 catalytic residue [active] 398578008275 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 398578008276 CoenzymeA binding site [chemical binding]; other site 398578008277 subunit interaction site [polypeptide binding]; other site 398578008278 PHB binding site; other site 398578008279 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 398578008280 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 398578008281 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 398578008282 motif II; other site 398578008283 Predicted membrane protein [Function unknown]; Region: COG3235 398578008284 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 398578008285 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 398578008286 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 398578008287 ATP binding site [chemical binding]; other site 398578008288 putative Mg++ binding site [ion binding]; other site 398578008289 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 398578008290 nucleotide binding region [chemical binding]; other site 398578008291 ATP-binding site [chemical binding]; other site 398578008292 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 398578008293 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 398578008294 substrate binding site; other site 398578008295 dimer interface; other site 398578008296 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 398578008297 homotrimer interaction site [polypeptide binding]; other site 398578008298 zinc binding site [ion binding]; other site 398578008299 CDP-binding sites; other site 398578008300 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 398578008301 dimerization interface [polypeptide binding]; other site 398578008302 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 398578008303 dimer interface [polypeptide binding]; other site 398578008304 phosphorylation site [posttranslational modification] 398578008305 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 398578008306 ATP binding site [chemical binding]; other site 398578008307 Mg2+ binding site [ion binding]; other site 398578008308 G-X-G motif; other site 398578008309 osmolarity response regulator; Provisional; Region: ompR; PRK09468 398578008310 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 398578008311 active site 398578008312 phosphorylation site [posttranslational modification] 398578008313 intermolecular recognition site; other site 398578008314 dimerization interface [polypeptide binding]; other site 398578008315 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 398578008316 DNA binding site [nucleotide binding] 398578008317 Protein of unknown function (DUF541); Region: SIMPL; cl01077 398578008318 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 398578008319 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398578008320 NAD(P) binding site [chemical binding]; other site 398578008321 active site 398578008322 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398578008323 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 398578008324 HD domain; Region: HD_4; pfam13328 398578008325 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 398578008326 synthetase active site [active] 398578008327 NTP binding site [chemical binding]; other site 398578008328 metal binding site [ion binding]; metal-binding site 398578008329 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 398578008330 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 398578008331 Domain of unknown function (DU1801); Region: DUF1801; cl17490 398578008332 Domain of unknown function (DU1801); Region: DUF1801; cl17490 398578008333 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 398578008334 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398578008335 Coenzyme A binding pocket [chemical binding]; other site 398578008336 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 398578008337 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 398578008338 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578008339 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 398578008340 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 398578008341 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398578008342 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 398578008343 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 398578008344 homodimer interface [polypeptide binding]; other site 398578008345 active site 398578008346 FMN binding site [chemical binding]; other site 398578008347 substrate binding site [chemical binding]; other site 398578008348 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 398578008349 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 398578008350 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 398578008351 Na binding site [ion binding]; other site 398578008352 putative substrate binding site [chemical binding]; other site 398578008353 phenylhydantoinase; Validated; Region: PRK08323 398578008354 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 398578008355 tetramer interface [polypeptide binding]; other site 398578008356 active site 398578008357 allantoate amidohydrolase; Reviewed; Region: PRK12893 398578008358 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 398578008359 active site 398578008360 metal binding site [ion binding]; metal-binding site 398578008361 dimer interface [polypeptide binding]; other site 398578008362 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 398578008363 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 398578008364 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 398578008365 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 398578008366 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 398578008367 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 398578008368 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 398578008369 FeS/SAM binding site; other site 398578008370 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 398578008371 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 398578008372 NAD binding site [chemical binding]; other site 398578008373 substrate binding site [chemical binding]; other site 398578008374 catalytic Zn binding site [ion binding]; other site 398578008375 tetramer interface [polypeptide binding]; other site 398578008376 structural Zn binding site [ion binding]; other site 398578008377 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 398578008378 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 398578008379 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 398578008380 elongation factor P; Validated; Region: PRK00529 398578008381 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 398578008382 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 398578008383 RNA binding site [nucleotide binding]; other site 398578008384 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 398578008385 RNA binding site [nucleotide binding]; other site 398578008386 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 398578008387 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 398578008388 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578008389 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578008390 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 398578008391 putative dimerization interface [polypeptide binding]; other site 398578008392 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398578008393 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398578008394 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 398578008395 active site 398578008396 catalytic residues [active] 398578008397 metal binding site [ion binding]; metal-binding site 398578008398 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 398578008399 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 398578008400 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 398578008401 GIY-YIG motif/motif A; other site 398578008402 active site 398578008403 catalytic site [active] 398578008404 putative DNA binding site [nucleotide binding]; other site 398578008405 metal binding site [ion binding]; metal-binding site 398578008406 UvrB/uvrC motif; Region: UVR; pfam02151 398578008407 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 398578008408 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 398578008409 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 398578008410 IHF dimer interface [polypeptide binding]; other site 398578008411 IHF - DNA interface [nucleotide binding]; other site 398578008412 SurA N-terminal domain; Region: SurA_N_3; cl07813 398578008413 periplasmic folding chaperone; Provisional; Region: PRK10788 398578008414 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 398578008415 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 398578008416 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 398578008417 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 398578008418 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 398578008419 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 398578008420 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 398578008421 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 398578008422 Isochorismatase family; Region: Isochorismatase; pfam00857 398578008423 catalytic triad [active] 398578008424 dimer interface [polypeptide binding]; other site 398578008425 conserved cis-peptide bond; other site 398578008426 Isochorismatase family; Region: Isochorismatase; pfam00857 398578008427 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 398578008428 catalytic triad [active] 398578008429 dimer interface [polypeptide binding]; other site 398578008430 conserved cis-peptide bond; other site 398578008431 LysR family transcriptional regulator; Provisional; Region: PRK14997 398578008432 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578008433 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 398578008434 putative effector binding pocket; other site 398578008435 putative dimerization interface [polypeptide binding]; other site 398578008436 Protein of unknown function (DUF461); Region: DUF461; pfam04314 398578008437 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 398578008438 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 398578008439 Protein of unknown function (DUF461); Region: DUF461; pfam04314 398578008440 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 398578008441 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 398578008442 N-terminal plug; other site 398578008443 ligand-binding site [chemical binding]; other site 398578008444 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 398578008445 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 398578008446 N-terminal plug; other site 398578008447 ligand-binding site [chemical binding]; other site 398578008448 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 398578008449 carboxyltransferase (CT) interaction site; other site 398578008450 biotinylation site [posttranslational modification]; other site 398578008451 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_6; cd06243 398578008452 putative active site [active] 398578008453 Zn binding site [ion binding]; other site 398578008454 helicase 45; Provisional; Region: PTZ00424 398578008455 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 398578008456 ATP binding site [chemical binding]; other site 398578008457 Mg++ binding site [ion binding]; other site 398578008458 motif III; other site 398578008459 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 398578008460 nucleotide binding region [chemical binding]; other site 398578008461 ATP-binding site [chemical binding]; other site 398578008462 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 398578008463 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578008464 Walker A/P-loop; other site 398578008465 ATP binding site [chemical binding]; other site 398578008466 Q-loop/lid; other site 398578008467 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398578008468 ABC transporter; Region: ABC_tran_2; pfam12848 398578008469 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398578008470 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 398578008471 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398578008472 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 398578008473 putative active site pocket [active] 398578008474 cleavage site 398578008475 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 398578008476 Predicted metal-binding protein [General function prediction only]; Region: COG3019 398578008477 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 398578008478 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 398578008479 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 398578008480 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 398578008481 Outer membrane efflux protein; Region: OEP; pfam02321 398578008482 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 398578008483 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 398578008484 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398578008485 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 398578008486 motif II; other site 398578008487 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 398578008488 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 398578008489 DNA binding residues [nucleotide binding] 398578008490 Permease; Region: Permease; cl00510 398578008491 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 398578008492 mce related protein; Region: MCE; pfam02470 398578008493 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 398578008494 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398578008495 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 398578008496 trimer interface [polypeptide binding]; other site 398578008497 eyelet of channel; other site 398578008498 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398578008499 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 398578008500 active site 398578008501 phosphorylation site [posttranslational modification] 398578008502 intermolecular recognition site; other site 398578008503 dimerization interface [polypeptide binding]; other site 398578008504 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 398578008505 DNA binding residues [nucleotide binding] 398578008506 dimerization interface [polypeptide binding]; other site 398578008507 PAS domain; Region: PAS; smart00091 398578008508 PAS fold; Region: PAS_7; pfam12860 398578008509 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398578008510 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 398578008511 dimer interface [polypeptide binding]; other site 398578008512 phosphorylation site [posttranslational modification] 398578008513 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 398578008514 ATP binding site [chemical binding]; other site 398578008515 Mg2+ binding site [ion binding]; other site 398578008516 G-X-G motif; other site 398578008517 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 398578008518 Response regulator receiver domain; Region: Response_reg; pfam00072 398578008519 active site 398578008520 phosphorylation site [posttranslational modification] 398578008521 intermolecular recognition site; other site 398578008522 dimerization interface [polypeptide binding]; other site 398578008523 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 398578008524 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398578008525 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 398578008526 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 398578008527 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 398578008528 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 398578008529 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 398578008530 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 398578008531 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 398578008532 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 398578008533 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398578008534 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 398578008535 TM-ABC transporter signature motif; other site 398578008536 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398578008537 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 398578008538 Walker A/P-loop; other site 398578008539 ATP binding site [chemical binding]; other site 398578008540 Q-loop/lid; other site 398578008541 ABC transporter signature motif; other site 398578008542 Walker B; other site 398578008543 D-loop; other site 398578008544 H-loop/switch region; other site 398578008545 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 398578008546 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 398578008547 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 398578008548 putative ligand binding site [chemical binding]; other site 398578008549 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 398578008550 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398578008551 dimer interface [polypeptide binding]; other site 398578008552 PYR/PP interface [polypeptide binding]; other site 398578008553 TPP binding site [chemical binding]; other site 398578008554 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 398578008555 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 398578008556 TPP-binding site [chemical binding]; other site 398578008557 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 398578008558 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 398578008559 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398578008560 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 398578008561 trimer interface [polypeptide binding]; other site 398578008562 eyelet of channel; other site 398578008563 hypothetical protein; Provisional; Region: PRK09936 398578008564 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398578008565 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578008566 active site 398578008567 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 398578008568 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 398578008569 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 398578008570 acyl-activating enzyme (AAE) consensus motif; other site 398578008571 AMP binding site [chemical binding]; other site 398578008572 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 398578008573 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 398578008574 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 398578008575 TPR motif; other site 398578008576 binding surface 398578008577 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 398578008578 bacteriophage N4 adsorption protein B; Provisional; Region: PRK14716 398578008579 active site 398578008580 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 398578008581 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 398578008582 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 398578008583 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 398578008584 active site 398578008585 homodimer interface [polypeptide binding]; other site 398578008586 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 398578008587 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 398578008588 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 398578008589 TPR motif; other site 398578008590 binding surface 398578008591 TPR repeat; Region: TPR_11; pfam13414 398578008592 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 398578008593 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 398578008594 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578008595 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578008596 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 398578008597 putative effector binding pocket; other site 398578008598 dimerization interface [polypeptide binding]; other site 398578008599 RNA polymerase sigma factor; Reviewed; Region: PRK12527 398578008600 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 398578008601 DNA binding residues [nucleotide binding] 398578008602 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 398578008603 FecR protein; Region: FecR; pfam04773 398578008604 Secretin and TonB N terminus short domain; Region: STN; smart00965 398578008605 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 398578008606 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 398578008607 N-terminal plug; other site 398578008608 ligand-binding site [chemical binding]; other site 398578008609 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 398578008610 PAS fold; Region: PAS_4; pfam08448 398578008611 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 398578008612 putative active site [active] 398578008613 heme pocket [chemical binding]; other site 398578008614 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 398578008615 PAS domain; Region: PAS_9; pfam13426 398578008616 putative active site [active] 398578008617 heme pocket [chemical binding]; other site 398578008618 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 398578008619 dimer interface [polypeptide binding]; other site 398578008620 phosphorylation site [posttranslational modification] 398578008621 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 398578008622 ATP binding site [chemical binding]; other site 398578008623 Mg2+ binding site [ion binding]; other site 398578008624 G-X-G motif; other site 398578008625 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 398578008626 active site 398578008627 phosphorylation site [posttranslational modification] 398578008628 intermolecular recognition site; other site 398578008629 dimerization interface [polypeptide binding]; other site 398578008630 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 398578008631 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 398578008632 Walker A motif; other site 398578008633 ATP binding site [chemical binding]; other site 398578008634 Walker B motif; other site 398578008635 arginine finger; other site 398578008636 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398578008637 SnoaL-like domain; Region: SnoaL_2; pfam12680 398578008638 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 398578008639 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 398578008640 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 398578008641 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 398578008642 putative NAD(P) binding site [chemical binding]; other site 398578008643 catalytic Zn binding site [ion binding]; other site 398578008644 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578008645 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578008646 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 398578008647 dimerization interface [polypeptide binding]; other site 398578008648 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 398578008649 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 398578008650 active site 1 [active] 398578008651 dimer interface [polypeptide binding]; other site 398578008652 hexamer interface [polypeptide binding]; other site 398578008653 active site 2 [active] 398578008654 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 398578008655 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 398578008656 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 398578008657 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 398578008658 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 398578008659 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 398578008660 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398578008661 catalytic residue [active] 398578008662 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 398578008663 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578008664 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398578008665 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398578008666 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 398578008667 active site 398578008668 catalytic residues [active] 398578008669 metal binding site [ion binding]; metal-binding site 398578008670 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398578008671 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398578008672 Bacterial transcriptional regulator; Region: IclR; pfam01614 398578008673 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 398578008674 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 398578008675 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 398578008676 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 398578008677 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 398578008678 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 398578008679 NAD binding site [chemical binding]; other site 398578008680 homotetramer interface [polypeptide binding]; other site 398578008681 homodimer interface [polypeptide binding]; other site 398578008682 substrate binding site [chemical binding]; other site 398578008683 active site 398578008684 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 398578008685 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 398578008686 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 398578008687 dimer interface [polypeptide binding]; other site 398578008688 conserved gate region; other site 398578008689 ABC-ATPase subunit interface; other site 398578008690 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 398578008691 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 398578008692 dimer interface [polypeptide binding]; other site 398578008693 conserved gate region; other site 398578008694 putative PBP binding loops; other site 398578008695 ABC-ATPase subunit interface; other site 398578008696 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 398578008697 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398578008698 Walker A/P-loop; other site 398578008699 ATP binding site [chemical binding]; other site 398578008700 Q-loop/lid; other site 398578008701 ABC transporter signature motif; other site 398578008702 Walker B; other site 398578008703 D-loop; other site 398578008704 H-loop/switch region; other site 398578008705 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398578008706 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398578008707 Walker A/P-loop; other site 398578008708 ATP binding site [chemical binding]; other site 398578008709 Q-loop/lid; other site 398578008710 ABC transporter signature motif; other site 398578008711 Walker B; other site 398578008712 D-loop; other site 398578008713 H-loop/switch region; other site 398578008714 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 398578008715 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 398578008716 DNA binding site [nucleotide binding] 398578008717 active site 398578008718 Int/Topo IB signature motif; other site 398578008719 catalytic residues [active] 398578008720 Putative phage integrase; Region: Phage_Integr_2; pfam13009 398578008721 DNA binding site [nucleotide binding] 398578008722 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 398578008723 active site 398578008724 Int/Topo IB signature motif; other site 398578008725 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 398578008726 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 398578008727 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 398578008728 HSP70 interaction site [polypeptide binding]; other site 398578008729 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 398578008730 substrate binding site [polypeptide binding]; other site 398578008731 dimer interface [polypeptide binding]; other site 398578008732 Cytochrome c; Region: Cytochrom_C; cl11414 398578008733 Cytochrome c; Region: Cytochrom_C; cl11414 398578008734 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398578008735 Cytochrome c; Region: Cytochrom_C; pfam00034 398578008736 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 398578008737 catalytic residues [active] 398578008738 ribosome maturation protein RimP; Reviewed; Region: PRK00092 398578008739 Sm and related proteins; Region: Sm_like; cl00259 398578008740 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 398578008741 putative oligomer interface [polypeptide binding]; other site 398578008742 putative RNA binding site [nucleotide binding]; other site 398578008743 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 398578008744 NusA N-terminal domain; Region: NusA_N; pfam08529 398578008745 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 398578008746 RNA binding site [nucleotide binding]; other site 398578008747 homodimer interface [polypeptide binding]; other site 398578008748 NusA-like KH domain; Region: KH_5; pfam13184 398578008749 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 398578008750 G-X-X-G motif; other site 398578008751 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 398578008752 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 398578008753 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 398578008754 translation initiation factor IF-2; Region: IF-2; TIGR00487 398578008755 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 398578008756 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 398578008757 G1 box; other site 398578008758 putative GEF interaction site [polypeptide binding]; other site 398578008759 GTP/Mg2+ binding site [chemical binding]; other site 398578008760 Switch I region; other site 398578008761 G2 box; other site 398578008762 G3 box; other site 398578008763 Switch II region; other site 398578008764 G4 box; other site 398578008765 G5 box; other site 398578008766 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 398578008767 Translation-initiation factor 2; Region: IF-2; pfam11987 398578008768 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 398578008769 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 398578008770 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 398578008771 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 398578008772 RNA binding site [nucleotide binding]; other site 398578008773 active site 398578008774 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 398578008775 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 398578008776 G1 box; other site 398578008777 putative GEF interaction site [polypeptide binding]; other site 398578008778 GTP/Mg2+ binding site [chemical binding]; other site 398578008779 Switch I region; other site 398578008780 G2 box; other site 398578008781 G3 box; other site 398578008782 Switch II region; other site 398578008783 G4 box; other site 398578008784 G5 box; other site 398578008785 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 398578008786 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 398578008787 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 398578008788 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578008789 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 398578008790 dimerization interface [polypeptide binding]; other site 398578008791 substrate binding pocket [chemical binding]; other site 398578008792 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398578008793 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398578008794 (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 398578008795 active site 398578008796 catalytic site [active] 398578008797 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578008798 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 398578008799 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 398578008800 substrate binding site [chemical binding]; other site 398578008801 oxyanion hole (OAH) forming residues; other site 398578008802 trimer interface [polypeptide binding]; other site 398578008803 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 398578008804 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578008805 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578008806 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 398578008807 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398578008808 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 398578008809 DNA binding residues [nucleotide binding] 398578008810 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 398578008811 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 398578008812 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 398578008813 SmpB-tmRNA interface; other site 398578008814 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 398578008815 putative coenzyme Q binding site [chemical binding]; other site 398578008816 RnfH family Ubiquitin; Region: Ub-RnfH; cl17382 398578008817 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 398578008818 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 398578008819 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 398578008820 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 398578008821 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 398578008822 active site 398578008823 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 398578008824 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 398578008825 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578008826 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 398578008827 dimerization interface [polypeptide binding]; other site 398578008828 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 398578008829 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 398578008830 putative active site [active] 398578008831 homotetrameric interface [polypeptide binding]; other site 398578008832 GMP synthase; Reviewed; Region: guaA; PRK00074 398578008833 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 398578008834 AMP/PPi binding site [chemical binding]; other site 398578008835 candidate oxyanion hole; other site 398578008836 catalytic triad [active] 398578008837 potential glutamine specificity residues [chemical binding]; other site 398578008838 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 398578008839 ATP Binding subdomain [chemical binding]; other site 398578008840 Ligand Binding sites [chemical binding]; other site 398578008841 Dimerization subdomain; other site 398578008842 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 398578008843 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 398578008844 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 398578008845 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cl01268 398578008846 putative substrate binding pocket [chemical binding]; other site 398578008847 trimer interface [polypeptide binding]; other site 398578008848 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578008849 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578008850 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578008851 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 398578008852 dimerization interface [polypeptide binding]; other site 398578008853 Uncharacterized conserved protein [Function unknown]; Region: COG1359 398578008854 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 398578008855 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 398578008856 putative NAD(P) binding site [chemical binding]; other site 398578008857 dimer interface [polypeptide binding]; other site 398578008858 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 398578008859 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 398578008860 FMN binding site [chemical binding]; other site 398578008861 active site 398578008862 substrate binding site [chemical binding]; other site 398578008863 catalytic residue [active] 398578008864 RibD C-terminal domain; Region: RibD_C; cl17279 398578008865 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578008866 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578008867 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 398578008868 putative substrate binding pocket [chemical binding]; other site 398578008869 dimerization interface [polypeptide binding]; other site 398578008870 4-hydroxyphenylacetate 3-hydroxylase N terminal; Region: HpaB_N; pfam11794 398578008871 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 398578008872 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398578008873 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 398578008874 dimerization interface [polypeptide binding]; other site 398578008875 ligand binding site [chemical binding]; other site 398578008876 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 398578008877 TM-ABC transporter signature motif; other site 398578008878 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 398578008879 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 398578008880 TM-ABC transporter signature motif; other site 398578008881 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398578008882 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 398578008883 Walker A/P-loop; other site 398578008884 ATP binding site [chemical binding]; other site 398578008885 Q-loop/lid; other site 398578008886 ABC transporter signature motif; other site 398578008887 Walker B; other site 398578008888 D-loop; other site 398578008889 H-loop/switch region; other site 398578008890 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398578008891 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 398578008892 Walker A/P-loop; other site 398578008893 ATP binding site [chemical binding]; other site 398578008894 Q-loop/lid; other site 398578008895 ABC transporter signature motif; other site 398578008896 Walker B; other site 398578008897 D-loop; other site 398578008898 H-loop/switch region; other site 398578008899 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398578008900 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 398578008901 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 398578008902 homotrimer interaction site [polypeptide binding]; other site 398578008903 putative active site [active] 398578008904 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 398578008905 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578008906 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578008907 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_7; cd08476 398578008908 putative dimerization interface [polypeptide binding]; other site 398578008909 putative effector binding pocket; other site 398578008910 Beta-lactamase; Region: Beta-lactamase; pfam00144 398578008911 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 398578008912 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 398578008913 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398578008914 putative substrate translocation pore; other site 398578008915 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 398578008916 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578008917 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578008918 metal binding site [ion binding]; metal-binding site 398578008919 active site 398578008920 I-site; other site 398578008921 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 398578008922 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578008923 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578008924 metal binding site [ion binding]; metal-binding site 398578008925 active site 398578008926 I-site; other site 398578008927 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 398578008928 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 398578008929 FOG: CBS domain [General function prediction only]; Region: COG0517 398578008930 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 398578008931 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 398578008932 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 398578008933 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 398578008934 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 398578008935 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 398578008936 ATP-dependent DNA ligase; Validated; Region: PRK09247 398578008937 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 398578008938 active site 398578008939 DNA binding site [nucleotide binding] 398578008940 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 398578008941 DNA binding site [nucleotide binding] 398578008942 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 398578008943 DEAD/DEAH box helicase; Region: DEAD; pfam00270 398578008944 ATP binding site [chemical binding]; other site 398578008945 putative Mg++ binding site [ion binding]; other site 398578008946 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 398578008947 nucleotide binding region [chemical binding]; other site 398578008948 ATP-binding site [chemical binding]; other site 398578008949 DEAD/H associated; Region: DEAD_assoc; pfam08494 398578008950 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 398578008951 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398578008952 putative active site [active] 398578008953 putative metal binding site [ion binding]; other site 398578008954 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 398578008955 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 398578008956 Cl binding site [ion binding]; other site 398578008957 oligomer interface [polypeptide binding]; other site 398578008958 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 398578008959 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 398578008960 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 398578008961 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 398578008962 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398578008963 catalytic residue [active] 398578008964 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398578008965 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578008966 DNA-binding site [nucleotide binding]; DNA binding site 398578008967 FCD domain; Region: FCD; pfam07729 398578008968 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398578008969 FAD binding domain; Region: FAD_binding_4; pfam01565 398578008970 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 398578008971 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 398578008972 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 398578008973 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 398578008974 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 398578008975 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 398578008976 putative active site [active] 398578008977 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398578008978 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 398578008979 Walker A/P-loop; other site 398578008980 ATP binding site [chemical binding]; other site 398578008981 Q-loop/lid; other site 398578008982 ABC transporter signature motif; other site 398578008983 Walker B; other site 398578008984 D-loop; other site 398578008985 H-loop/switch region; other site 398578008986 Cupin superfamily protein; Region: Cupin_4; pfam08007 398578008987 Cupin-like domain; Region: Cupin_8; pfam13621 398578008988 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 398578008989 Radical SAM superfamily; Region: Radical_SAM; pfam04055 398578008990 FeS/SAM binding site; other site 398578008991 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 398578008992 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398578008993 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578008994 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398578008995 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578008996 DNA-binding site [nucleotide binding]; DNA binding site 398578008997 FCD domain; Region: FCD; pfam07729 398578008998 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 398578008999 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 398578009000 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 398578009001 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 398578009002 N-terminal plug; other site 398578009003 ligand-binding site [chemical binding]; other site 398578009004 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 398578009005 B3/4 domain; Region: B3_4; pfam03483 398578009006 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 398578009007 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578009008 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398578009009 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578009010 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 398578009011 Chromate transporter; Region: Chromate_transp; pfam02417 398578009012 methionine sulfoxide reductase A; Provisional; Region: PRK13014 398578009013 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 398578009014 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 398578009015 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 398578009016 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398578009017 catalytic residues [active] 398578009018 methionine sulfoxide reductase B; Provisional; Region: PRK00222 398578009019 SelR domain; Region: SelR; pfam01641 398578009020 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398578009021 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 398578009022 active site 398578009023 phosphorylation site [posttranslational modification] 398578009024 intermolecular recognition site; other site 398578009025 dimerization interface [polypeptide binding]; other site 398578009026 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 398578009027 DNA binding site [nucleotide binding] 398578009028 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 398578009029 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 398578009030 dimer interface [polypeptide binding]; other site 398578009031 phosphorylation site [posttranslational modification] 398578009032 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 398578009033 ATP binding site [chemical binding]; other site 398578009034 Mg2+ binding site [ion binding]; other site 398578009035 G-X-G motif; other site 398578009036 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 398578009037 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 398578009038 active site 398578009039 FMN binding site [chemical binding]; other site 398578009040 substrate binding site [chemical binding]; other site 398578009041 3Fe-4S cluster binding site [ion binding]; other site 398578009042 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 398578009043 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 398578009044 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 398578009045 CSLREA domain; Region: CSLREA_Nterm; TIGR04214 398578009046 Right handed beta helix region; Region: Beta_helix; pfam13229 398578009047 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 398578009048 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 398578009049 dimer interface [polypeptide binding]; other site 398578009050 phosphorylation site [posttranslational modification] 398578009051 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 398578009052 ATP binding site [chemical binding]; other site 398578009053 Mg2+ binding site [ion binding]; other site 398578009054 G-X-G motif; other site 398578009055 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398578009056 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 398578009057 active site 398578009058 phosphorylation site [posttranslational modification] 398578009059 intermolecular recognition site; other site 398578009060 dimerization interface [polypeptide binding]; other site 398578009061 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 398578009062 Response regulator receiver domain; Region: Response_reg; pfam00072 398578009063 active site 398578009064 phosphorylation site [posttranslational modification] 398578009065 intermolecular recognition site; other site 398578009066 dimerization interface [polypeptide binding]; other site 398578009067 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 398578009068 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 398578009069 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 398578009070 phosphorylation site [posttranslational modification] 398578009071 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 398578009072 ATP binding site [chemical binding]; other site 398578009073 Mg2+ binding site [ion binding]; other site 398578009074 G-X-G motif; other site 398578009075 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398578009076 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 398578009077 active site 398578009078 phosphorylation site [posttranslational modification] 398578009079 intermolecular recognition site; other site 398578009080 dimerization interface [polypeptide binding]; other site 398578009081 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398578009082 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 398578009083 active site 398578009084 phosphorylation site [posttranslational modification] 398578009085 intermolecular recognition site; other site 398578009086 dimerization interface [polypeptide binding]; other site 398578009087 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 398578009088 DNA binding residues [nucleotide binding] 398578009089 dimerization interface [polypeptide binding]; other site 398578009090 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 398578009091 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 398578009092 dimerization interface [polypeptide binding]; other site 398578009093 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398578009094 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578009095 dimer interface [polypeptide binding]; other site 398578009096 putative CheW interface [polypeptide binding]; other site 398578009097 BRO family, N-terminal domain; Region: Bro-N; smart01040 398578009098 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 398578009099 active site 398578009100 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 398578009101 Transposase; Region: HTH_Tnp_1; pfam01527 398578009102 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 398578009103 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 398578009104 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 398578009105 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 398578009106 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 398578009107 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 398578009108 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 398578009109 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 398578009110 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 398578009111 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 398578009112 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 398578009113 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 398578009114 amidase catalytic site [active] 398578009115 Zn binding residues [ion binding]; other site 398578009116 substrate binding site [chemical binding]; other site 398578009117 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398578009118 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578009119 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 398578009120 Predicted transcriptional regulators [Transcription]; Region: COG1733 398578009121 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 398578009122 dimerization interface [polypeptide binding]; other site 398578009123 putative DNA binding site [nucleotide binding]; other site 398578009124 putative Zn2+ binding site [ion binding]; other site 398578009125 glutathionine S-transferase; Provisional; Region: PRK10542 398578009126 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 398578009127 C-terminal domain interface [polypeptide binding]; other site 398578009128 GSH binding site (G-site) [chemical binding]; other site 398578009129 dimer interface [polypeptide binding]; other site 398578009130 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 398578009131 dimer interface [polypeptide binding]; other site 398578009132 N-terminal domain interface [polypeptide binding]; other site 398578009133 substrate binding pocket (H-site) [chemical binding]; other site 398578009134 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398578009135 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 398578009136 DNA binding residues [nucleotide binding] 398578009137 dimerization interface [polypeptide binding]; other site 398578009138 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398578009139 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 398578009140 DNA binding residues [nucleotide binding] 398578009141 dimerization interface [polypeptide binding]; other site 398578009142 MarR family; Region: MarR_2; cl17246 398578009143 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398578009144 EamA-like transporter family; Region: EamA; pfam00892 398578009145 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 398578009146 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 398578009147 dimer interface [polypeptide binding]; other site 398578009148 FMN binding site [chemical binding]; other site 398578009149 RibD C-terminal domain; Region: RibD_C; cl17279 398578009150 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578009151 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578009152 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 398578009153 nickel responsive regulator; Provisional; Region: PRK02967 398578009154 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 398578009155 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 398578009156 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 398578009157 N-terminal plug; other site 398578009158 ligand-binding site [chemical binding]; other site 398578009159 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 398578009160 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578009161 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 398578009162 Sulfatase; Region: Sulfatase; pfam00884 398578009163 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578009164 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578009165 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 398578009166 dimerization interface [polypeptide binding]; other site 398578009167 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 398578009168 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 398578009169 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 398578009170 putative DNA binding site [nucleotide binding]; other site 398578009171 putative Zn2+ binding site [ion binding]; other site 398578009172 AsnC family; Region: AsnC_trans_reg; pfam01037 398578009173 conserved repeat domain; Region: B_ant_repeat; TIGR01451 398578009174 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 398578009175 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 398578009176 active site 398578009177 metal binding site [ion binding]; metal-binding site 398578009178 hexamer interface [polypeptide binding]; other site 398578009179 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 398578009180 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578009181 Walker A/P-loop; other site 398578009182 ATP binding site [chemical binding]; other site 398578009183 Q-loop/lid; other site 398578009184 ABC transporter signature motif; other site 398578009185 Walker B; other site 398578009186 D-loop; other site 398578009187 H-loop/switch region; other site 398578009188 TOBE domain; Region: TOBE_2; pfam08402 398578009189 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 398578009190 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 398578009191 dimer interface [polypeptide binding]; other site 398578009192 conserved gate region; other site 398578009193 putative PBP binding loops; other site 398578009194 ABC-ATPase subunit interface; other site 398578009195 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 398578009196 ABC-ATPase subunit interface; other site 398578009197 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate binding protein; Region: PhnS; TIGR03227 398578009198 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 398578009199 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398578009200 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398578009201 DNA binding site [nucleotide binding] 398578009202 domain linker motif; other site 398578009203 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 398578009204 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 398578009205 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578009206 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the chlorocatechol catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_Chlorocatechol; cd08446 398578009207 dimerization interface [polypeptide binding]; other site 398578009208 putative substrate binding pocket [chemical binding]; other site 398578009209 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578009210 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 398578009211 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 398578009212 active site 398578009213 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398578009214 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 398578009215 active site 398578009216 NTP binding site [chemical binding]; other site 398578009217 metal binding triad [ion binding]; metal-binding site 398578009218 GntP family permease; Region: GntP_permease; pfam02447 398578009219 fructuronate transporter; Provisional; Region: PRK10034; cl15264 398578009220 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 398578009221 rRNA binding site [nucleotide binding]; other site 398578009222 predicted 30S ribosome binding site; other site 398578009223 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 398578009224 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 398578009225 Moco binding site; other site 398578009226 metal coordination site [ion binding]; other site 398578009227 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 398578009228 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578009229 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578009230 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 398578009231 putative dimerization interface [polypeptide binding]; other site 398578009232 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 398578009233 active site 398578009234 catalytic residues [active] 398578009235 metal binding site [ion binding]; metal-binding site 398578009236 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398578009237 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398578009238 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578009239 PemK-like protein; Region: PemK; cl00995 398578009240 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 398578009241 putative active site [active] 398578009242 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 398578009243 dimerization interface [polypeptide binding]; other site 398578009244 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 398578009245 dimer interface [polypeptide binding]; other site 398578009246 phosphorylation site [posttranslational modification] 398578009247 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 398578009248 ATP binding site [chemical binding]; other site 398578009249 Mg2+ binding site [ion binding]; other site 398578009250 G-X-G motif; other site 398578009251 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 398578009252 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 398578009253 active site 398578009254 phosphorylation site [posttranslational modification] 398578009255 intermolecular recognition site; other site 398578009256 dimerization interface [polypeptide binding]; other site 398578009257 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 398578009258 DNA binding site [nucleotide binding] 398578009259 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 398578009260 active site 398578009261 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 398578009262 non-prolyl cis peptide bond; other site 398578009263 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 398578009264 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 398578009265 N-terminal plug; other site 398578009266 ligand-binding site [chemical binding]; other site 398578009267 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398578009268 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398578009269 Bacterial transcriptional regulator; Region: IclR; pfam01614 398578009270 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 398578009271 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 398578009272 Walker A/P-loop; other site 398578009273 ATP binding site [chemical binding]; other site 398578009274 Q-loop/lid; other site 398578009275 ABC transporter signature motif; other site 398578009276 Walker B; other site 398578009277 D-loop; other site 398578009278 H-loop/switch region; other site 398578009279 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 398578009280 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 398578009281 intersubunit interface [polypeptide binding]; other site 398578009282 FecCD transport family; Region: FecCD; pfam01032 398578009283 dimer interface [polypeptide binding]; other site 398578009284 putative PBP binding regions; other site 398578009285 ABC-ATPase subunit interface; other site 398578009286 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 398578009287 ABC-ATPase subunit interface; other site 398578009288 dimer interface [polypeptide binding]; other site 398578009289 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 398578009290 non-specific DNA binding site [nucleotide binding]; other site 398578009291 salt bridge; other site 398578009292 sequence-specific DNA binding site [nucleotide binding]; other site 398578009293 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578009294 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 398578009295 active site 398578009296 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 398578009297 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578009298 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578009299 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 398578009300 dimerization interface [polypeptide binding]; other site 398578009301 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-1; cd12808 398578009302 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398578009303 catalytic site [active] 398578009304 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578009305 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578009306 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578009307 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 398578009308 putative effector binding pocket; other site 398578009309 dimerization interface [polypeptide binding]; other site 398578009310 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578009311 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 398578009312 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578009313 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 398578009314 acyl-activating enzyme (AAE) consensus motif; other site 398578009315 putative AMP binding site [chemical binding]; other site 398578009316 putative active site [active] 398578009317 acyl-activating enzyme (AAE) consensus motif; other site 398578009318 putative CoA binding site [chemical binding]; other site 398578009319 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398578009320 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 398578009321 NAD(P) binding site [chemical binding]; other site 398578009322 substrate binding site [chemical binding]; other site 398578009323 homotetramer interface [polypeptide binding]; other site 398578009324 active site 398578009325 homodimer interface [polypeptide binding]; other site 398578009326 Winged helix-turn helix; Region: HTH_29; pfam13551 398578009327 Homeodomain-like domain; Region: HTH_23; cl17451 398578009328 Integrase core domain; Region: rve; pfam00665 398578009329 Integrase core domain; Region: rve_3; pfam13683 398578009330 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398578009331 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398578009332 Cytochrome c; Region: Cytochrom_C; pfam00034 398578009333 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 398578009334 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 398578009335 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398578009336 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 398578009337 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398578009338 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 398578009339 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398578009340 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 398578009341 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 398578009342 Walker A/P-loop; other site 398578009343 ATP binding site [chemical binding]; other site 398578009344 Q-loop/lid; other site 398578009345 ABC transporter signature motif; other site 398578009346 Walker B; other site 398578009347 D-loop; other site 398578009348 H-loop/switch region; other site 398578009349 NIL domain; Region: NIL; pfam09383 398578009350 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 398578009351 dimer interface [polypeptide binding]; other site 398578009352 conserved gate region; other site 398578009353 ABC-ATPase subunit interface; other site 398578009354 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 398578009355 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 398578009356 Cupin domain; Region: Cupin_2; pfam07883 398578009357 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 398578009358 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 398578009359 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578009360 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578009361 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 398578009362 putative dimerization interface [polypeptide binding]; other site 398578009363 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; pfam08013 398578009364 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398578009365 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 398578009366 substrate binding site [chemical binding]; other site 398578009367 ATP binding site [chemical binding]; other site 398578009368 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 398578009369 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398578009370 TM-ABC transporter signature motif; other site 398578009371 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398578009372 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 398578009373 Walker A/P-loop; other site 398578009374 ATP binding site [chemical binding]; other site 398578009375 Q-loop/lid; other site 398578009376 ABC transporter signature motif; other site 398578009377 Walker B; other site 398578009378 D-loop; other site 398578009379 H-loop/switch region; other site 398578009380 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 398578009381 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 398578009382 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_12; cd06322 398578009383 putative ligand binding site [chemical binding]; other site 398578009384 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 398578009385 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 398578009386 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 398578009387 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 398578009388 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 398578009389 catalytic triad [active] 398578009390 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 398578009391 EamA-like transporter family; Region: EamA; pfam00892 398578009392 Cupin domain; Region: Cupin_2; cl17218 398578009393 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 398578009394 shikimate kinase; Reviewed; Region: aroK; PRK00131 398578009395 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 398578009396 ligand-binding site [chemical binding]; other site 398578009397 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 398578009398 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 398578009399 active site 398578009400 DNA binding site [nucleotide binding] 398578009401 Int/Topo IB signature motif; other site 398578009402 Restriction alleviation protein Lar; Region: Lar_restr_allev; pfam14354 398578009403 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 398578009404 HNH endonuclease; Region: HNH_3; pfam13392 398578009405 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor...; Region: AP2; cl00033 398578009406 DNA binding site [nucleotide binding] 398578009407 HNH endonuclease; Region: HNH_3; pfam13392 398578009408 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor...; Region: AP2; cd00018 398578009409 DNA binding site [nucleotide binding] 398578009410 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 398578009411 ERF superfamily; Region: ERF; pfam04404 398578009412 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 398578009413 Predicted transcriptional regulator [Transcription]; Region: COG2932 398578009414 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 398578009415 Catalytic site [active] 398578009416 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 398578009417 replicative DNA helicase; Region: DnaB; TIGR00665 398578009418 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 398578009419 Walker A motif; other site 398578009420 ATP binding site [chemical binding]; other site 398578009421 Walker B motif; other site 398578009422 DNA binding loops [nucleotide binding] 398578009423 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 398578009424 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 398578009425 NinB protein; Region: NinB; pfam05772 398578009426 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 398578009427 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 398578009428 Uncharacterized conserved protein (DUF2280); Region: DUF2280; pfam10045 398578009429 Phage terminase large subunit; Region: Terminase_3; cl12054 398578009430 Terminase-like family; Region: Terminase_6; pfam03237 398578009431 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 398578009432 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 398578009433 DNA polymerase II large subunit; Validated; Region: PRK04023 398578009434 Bacteriophage related domain of unknown function; Region: DUF4128; pfam13554 398578009435 Phage tail protein; Region: Phage_tail_3; pfam08813 398578009436 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 398578009437 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 398578009438 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 398578009439 Arc-like DNA binding domain; Region: Arc; pfam03869 398578009440 KilA-N domain; Region: KilA-N; pfam04383 398578009441 Prophage antirepressor [Transcription]; Region: COG3617 398578009442 BRO family, N-terminal domain; Region: Bro-N; smart01040 398578009443 Phage-related minor tail protein [Function unknown]; Region: COG5281 398578009444 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 398578009445 Chitin/cellulose binding domains of chitinase and related enzymes; Region: ChtBD3; cl00046 398578009446 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 398578009447 AMP binding site [chemical binding]; other site 398578009448 metal binding site [ion binding]; metal-binding site 398578009449 active site 398578009450 aminopeptidase N; Provisional; Region: pepN; PRK14015 398578009451 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 398578009452 active site 398578009453 Zn binding site [ion binding]; other site 398578009454 peptide chain release factor 2; Validated; Region: prfB; PRK00578 398578009455 This domain is found in peptide chain release factors; Region: PCRF; smart00937 398578009456 RF-1 domain; Region: RF-1; pfam00472 398578009457 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398578009458 HAMP domain; Region: HAMP; pfam00672 398578009459 dimerization interface [polypeptide binding]; other site 398578009460 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398578009461 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578009462 dimer interface [polypeptide binding]; other site 398578009463 putative CheW interface [polypeptide binding]; other site 398578009464 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 398578009465 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 398578009466 putative active site [active] 398578009467 heme pocket [chemical binding]; other site 398578009468 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 398578009469 putative active site [active] 398578009470 heme pocket [chemical binding]; other site 398578009471 GAF domain; Region: GAF; cl17456 398578009472 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578009473 metal binding site [ion binding]; metal-binding site 398578009474 active site 398578009475 I-site; other site 398578009476 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 398578009477 RNA polymerase sigma factor; Provisional; Region: PRK12528 398578009478 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398578009479 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 398578009480 DNA binding residues [nucleotide binding] 398578009481 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 398578009482 FecR protein; Region: FecR; pfam04773 398578009483 Secretin and TonB N terminus short domain; Region: STN; smart00965 398578009484 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 398578009485 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 398578009486 N-terminal plug; other site 398578009487 ligand-binding site [chemical binding]; other site 398578009488 RNA polymerase sigma factor; Provisional; Region: PRK12528 398578009489 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398578009490 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 398578009491 DNA binding residues [nucleotide binding] 398578009492 fec operon regulator FecR; Reviewed; Region: PRK09774 398578009493 FecR protein; Region: FecR; pfam04773 398578009494 Secretin and TonB N terminus short domain; Region: STN; smart00965 398578009495 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 398578009496 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 398578009497 N-terminal plug; other site 398578009498 ligand-binding site [chemical binding]; other site 398578009499 RNA polymerase sigma factor; Provisional; Region: PRK12528 398578009500 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398578009501 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 398578009502 fec operon regulator FecR; Reviewed; Region: PRK09774 398578009503 FecR protein; Region: FecR; pfam04773 398578009504 Secretin and TonB N terminus short domain; Region: STN; smart00965 398578009505 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 398578009506 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 398578009507 N-terminal plug; other site 398578009508 ligand-binding site [chemical binding]; other site 398578009509 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 398578009510 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 398578009511 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 398578009512 macrolide transporter subunit MacA; Provisional; Region: PRK11578 398578009513 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398578009514 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578009515 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 398578009516 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398578009517 Walker A/P-loop; other site 398578009518 ATP binding site [chemical binding]; other site 398578009519 Q-loop/lid; other site 398578009520 ABC transporter signature motif; other site 398578009521 Walker B; other site 398578009522 D-loop; other site 398578009523 H-loop/switch region; other site 398578009524 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 398578009525 FtsX-like permease family; Region: FtsX; pfam02687 398578009526 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398578009527 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398578009528 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578009529 active site 398578009530 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 398578009531 Phosphotransferase enzyme family; Region: APH; pfam01636 398578009532 putative active site [active] 398578009533 putative substrate binding site [chemical binding]; other site 398578009534 ATP binding site [chemical binding]; other site 398578009535 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398578009536 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 398578009537 ligand binding site [chemical binding]; other site 398578009538 flexible hinge region; other site 398578009539 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 398578009540 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 398578009541 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 398578009542 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398578009543 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398578009544 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 398578009545 thiamine phosphate binding site [chemical binding]; other site 398578009546 active site 398578009547 pyrophosphate binding site [ion binding]; other site 398578009548 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 398578009549 ThiS interaction site; other site 398578009550 putative active site [active] 398578009551 tetramer interface [polypeptide binding]; other site 398578009552 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 398578009553 thiS-thiF/thiG interaction site; other site 398578009554 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 398578009555 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 398578009556 dimer interface [polypeptide binding]; other site 398578009557 substrate binding site [chemical binding]; other site 398578009558 ATP binding site [chemical binding]; other site 398578009559 Bacterial SH3 domain; Region: SH3_4; pfam06347 398578009560 Bacterial SH3 domain; Region: SH3_3; pfam08239 398578009561 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 398578009562 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 398578009563 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 398578009564 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 398578009565 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 398578009566 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 398578009567 N-terminal plug; other site 398578009568 ligand-binding site [chemical binding]; other site 398578009569 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 398578009570 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 398578009571 intracellular septation protein A; Reviewed; Region: PRK00259 398578009572 methionine sulfoxide reductase B; Provisional; Region: PRK00222 398578009573 SelR domain; Region: SelR; pfam01641 398578009574 Uncharacterized conserved protein [Function unknown]; Region: COG0397 398578009575 hypothetical protein; Validated; Region: PRK00029 398578009576 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 398578009577 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398578009578 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578009579 Carboxylesterase family; Region: COesterase; pfam00135 398578009580 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 398578009581 substrate binding pocket [chemical binding]; other site 398578009582 catalytic triad [active] 398578009583 Predicted acyl esterases [General function prediction only]; Region: COG2936 398578009584 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 398578009585 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 398578009586 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 398578009587 dimer interface [polypeptide binding]; other site 398578009588 acyl-activating enzyme (AAE) consensus motif; other site 398578009589 putative active site [active] 398578009590 AMP binding site [chemical binding]; other site 398578009591 putative CoA binding site [chemical binding]; other site 398578009592 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398578009593 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 398578009594 putative ligand binding site [chemical binding]; other site 398578009595 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398578009596 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 398578009597 putative ligand binding site [chemical binding]; other site 398578009598 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 398578009599 TM-ABC transporter signature motif; other site 398578009600 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 398578009601 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 398578009602 TM-ABC transporter signature motif; other site 398578009603 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398578009604 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 398578009605 Walker A/P-loop; other site 398578009606 ATP binding site [chemical binding]; other site 398578009607 Q-loop/lid; other site 398578009608 ABC transporter signature motif; other site 398578009609 Walker B; other site 398578009610 D-loop; other site 398578009611 H-loop/switch region; other site 398578009612 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398578009613 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 398578009614 Walker A/P-loop; other site 398578009615 ATP binding site [chemical binding]; other site 398578009616 Q-loop/lid; other site 398578009617 ABC transporter signature motif; other site 398578009618 Walker B; other site 398578009619 D-loop; other site 398578009620 H-loop/switch region; other site 398578009621 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 398578009622 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 398578009623 substrate binding site [chemical binding]; other site 398578009624 oxyanion hole (OAH) forming residues; other site 398578009625 trimer interface [polypeptide binding]; other site 398578009626 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 398578009627 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398578009628 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398578009629 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 398578009630 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 398578009631 dimer interface [polypeptide binding]; other site 398578009632 active site 398578009633 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 398578009634 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 398578009635 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578009636 active site 398578009637 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 398578009638 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 398578009639 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398578009640 Coenzyme A binding pocket [chemical binding]; other site 398578009641 AAA domain; Region: AAA_33; pfam13671 398578009642 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 398578009643 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 398578009644 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 398578009645 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 398578009646 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 398578009647 FAD binding pocket [chemical binding]; other site 398578009648 FAD binding motif [chemical binding]; other site 398578009649 phosphate binding motif [ion binding]; other site 398578009650 beta-alpha-beta structure motif; other site 398578009651 NAD binding pocket [chemical binding]; other site 398578009652 Heme binding pocket [chemical binding]; other site 398578009653 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 398578009654 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 398578009655 catalytic loop [active] 398578009656 iron binding site [ion binding]; other site 398578009657 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398578009658 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 398578009659 putative C-terminal domain interface [polypeptide binding]; other site 398578009660 putative GSH binding site (G-site) [chemical binding]; other site 398578009661 putative dimer interface [polypeptide binding]; other site 398578009662 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 398578009663 putative N-terminal domain interface [polypeptide binding]; other site 398578009664 putative dimer interface [polypeptide binding]; other site 398578009665 putative substrate binding pocket (H-site) [chemical binding]; other site 398578009666 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578009667 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578009668 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 398578009669 putative effector binding pocket; other site 398578009670 putative dimerization interface [polypeptide binding]; other site 398578009671 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 398578009672 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398578009673 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 398578009674 DNA binding residues [nucleotide binding] 398578009675 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 398578009676 FecR protein; Region: FecR; pfam04773 398578009677 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 398578009678 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 398578009679 N-terminal plug; other site 398578009680 ligand-binding site [chemical binding]; other site 398578009681 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 398578009682 putative substrate translocation pore; other site 398578009683 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578009684 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578009685 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 398578009686 putative substrate binding pocket [chemical binding]; other site 398578009687 putative dimerization interface [polypeptide binding]; other site 398578009688 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 398578009689 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 398578009690 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398578009691 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 398578009692 binding surface 398578009693 TPR motif; other site 398578009694 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 398578009695 amidase catalytic site [active] 398578009696 Zn binding residues [ion binding]; other site 398578009697 substrate binding site [chemical binding]; other site 398578009698 EamA-like transporter family; Region: EamA; pfam00892 398578009699 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578009700 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578009701 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 398578009702 putative effector binding pocket; other site 398578009703 dimerization interface [polypeptide binding]; other site 398578009704 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 398578009705 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 398578009706 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 398578009707 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 398578009708 Walker A/P-loop; other site 398578009709 ATP binding site [chemical binding]; other site 398578009710 Q-loop/lid; other site 398578009711 ABC transporter signature motif; other site 398578009712 Walker B; other site 398578009713 D-loop; other site 398578009714 H-loop/switch region; other site 398578009715 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 398578009716 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 398578009717 substrate binding pocket [chemical binding]; other site 398578009718 membrane-bound complex binding site; other site 398578009719 hinge residues; other site 398578009720 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 398578009721 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 398578009722 putative active site pocket [active] 398578009723 metal binding site [ion binding]; metal-binding site 398578009724 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 398578009725 classical (c) SDRs; Region: SDR_c; cd05233 398578009726 NAD(P) binding site [chemical binding]; other site 398578009727 active site 398578009728 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578009729 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 398578009730 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 398578009731 inhibitor site; inhibition site 398578009732 active site 398578009733 dimer interface [polypeptide binding]; other site 398578009734 catalytic residue [active] 398578009735 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578009736 cell density-dependent motility repressor; Provisional; Region: PRK10082 398578009737 L-lactate permease; Provisional; Region: PRK10420 398578009738 glycolate transporter; Provisional; Region: PRK09695 398578009739 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 398578009740 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578009741 DNA-binding site [nucleotide binding]; DNA binding site 398578009742 FCD domain; Region: FCD; pfam07729 398578009743 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 398578009744 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 398578009745 phosphate binding site [ion binding]; other site 398578009746 D-lactate dehydrogenase; Provisional; Region: PRK11183 398578009747 FAD binding domain; Region: FAD_binding_4; pfam01565 398578009748 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 398578009749 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 398578009750 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 398578009751 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 398578009752 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398578009753 NAD(P) binding site [chemical binding]; other site 398578009754 catalytic residues [active] 398578009755 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 398578009756 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 398578009757 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 398578009758 Trp docking motif [polypeptide binding]; other site 398578009759 cytochrome domain interface [polypeptide binding]; other site 398578009760 active site 398578009761 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 398578009762 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 398578009763 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 398578009764 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398578009765 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578009766 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578009767 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 398578009768 dimerization interface [polypeptide binding]; other site 398578009769 enolase; Provisional; Region: eno; PRK00077 398578009770 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 398578009771 dimer interface [polypeptide binding]; other site 398578009772 metal binding site [ion binding]; metal-binding site 398578009773 substrate binding pocket [chemical binding]; other site 398578009774 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 398578009775 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 398578009776 S-adenosylmethionine binding site [chemical binding]; other site 398578009777 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 398578009778 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 398578009779 DNA binding site [nucleotide binding] 398578009780 active site 398578009781 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 398578009782 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398578009783 NAD(P) binding site [chemical binding]; other site 398578009784 active site 398578009785 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 398578009786 CoenzymeA binding site [chemical binding]; other site 398578009787 subunit interaction site [polypeptide binding]; other site 398578009788 PHB binding site; other site 398578009789 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 398578009790 Prostaglandin dehydrogenases; Region: PGDH; cd05288 398578009791 NAD(P) binding site [chemical binding]; other site 398578009792 substrate binding site [chemical binding]; other site 398578009793 dimer interface [polypeptide binding]; other site 398578009794 hypothetical protein; Provisional; Region: PRK06194 398578009795 classical (c) SDRs; Region: SDR_c; cd05233 398578009796 NAD(P) binding site [chemical binding]; other site 398578009797 active site 398578009798 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 398578009799 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 398578009800 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 398578009801 putative substrate translocation pore; other site 398578009802 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398578009803 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 398578009804 putative substrate translocation pore; other site 398578009805 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398578009806 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398578009807 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578009808 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 398578009809 Protein export membrane protein; Region: SecD_SecF; cl14618 398578009810 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 398578009811 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 398578009812 Protein of unknown function DUF72; Region: DUF72; pfam01904 398578009813 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 398578009814 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 398578009815 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 398578009816 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 398578009817 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 398578009818 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 398578009819 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 398578009820 Multicopper oxidase; Region: Cu-oxidase; pfam00394 398578009821 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 398578009822 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 398578009823 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 398578009824 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 398578009825 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 398578009826 RNA binding site [nucleotide binding]; other site 398578009827 HDOD domain; Region: HDOD; pfam08668 398578009828 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 398578009829 Sel1-like repeats; Region: SEL1; smart00671 398578009830 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 398578009831 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 398578009832 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398578009833 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 398578009834 active site 398578009835 phosphorylation site [posttranslational modification] 398578009836 intermolecular recognition site; other site 398578009837 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 398578009838 DNA binding residues [nucleotide binding] 398578009839 dimerization interface [polypeptide binding]; other site 398578009840 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 398578009841 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 398578009842 ATP binding site [chemical binding]; other site 398578009843 Mg2+ binding site [ion binding]; other site 398578009844 G-X-G motif; other site 398578009845 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 398578009846 Domain of unknown function DUF20; Region: UPF0118; pfam01594 398578009847 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398578009848 GAF domain; Region: GAF; pfam01590 398578009849 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 398578009850 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 398578009851 putative active site [active] 398578009852 metal binding site [ion binding]; metal-binding site 398578009853 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 398578009854 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 398578009855 active site 398578009856 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398578009857 Coenzyme A binding pocket [chemical binding]; other site 398578009858 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 398578009859 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 398578009860 YceG-like family; Region: YceG; pfam02618 398578009861 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 398578009862 dimerization interface [polypeptide binding]; other site 398578009863 thymidylate kinase; Validated; Region: tmk; PRK00698 398578009864 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 398578009865 TMP-binding site; other site 398578009866 ATP-binding site [chemical binding]; other site 398578009867 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 398578009868 DNA polymerase III subunit delta'; Validated; Region: PRK08485 398578009869 PilZ domain; Region: PilZ; cl01260 398578009870 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 398578009871 active site 398578009872 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 398578009873 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 398578009874 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 398578009875 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 398578009876 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398578009877 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 398578009878 Walker A/P-loop; other site 398578009879 ATP binding site [chemical binding]; other site 398578009880 Q-loop/lid; other site 398578009881 ABC transporter signature motif; other site 398578009882 Walker B; other site 398578009883 D-loop; other site 398578009884 H-loop/switch region; other site 398578009885 translocation protein TolB; Provisional; Region: tolB; PRK02889 398578009886 TolB amino-terminal domain; Region: TolB_N; pfam04052 398578009887 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 398578009888 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 398578009889 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 398578009890 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 398578009891 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398578009892 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398578009893 ligand binding site [chemical binding]; other site 398578009894 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 398578009895 Tetratricopeptide repeat; Region: TPR_6; pfam13174 398578009896 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 398578009897 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 398578009898 putative ATP binding site [chemical binding]; other site 398578009899 putative substrate interface [chemical binding]; other site 398578009900 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cl17512 398578009901 beta-clamp/clamp loader binding surface; other site 398578009902 DEAD-like helicases superfamily; Region: DEXDc; smart00487 398578009903 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 398578009904 Flagellar protein (FlbD); Region: FlbD; cl00683 398578009905 VRR-NUC domain; Region: VRR_NUC; pfam08774 398578009906 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 398578009907 active site 398578009908 catalytic site [active] 398578009909 substrate binding site [chemical binding]; other site 398578009910 hypothetical protein; Provisional; Region: PRK09946 398578009911 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 398578009912 active site 398578009913 DNA binding site [nucleotide binding] 398578009914 catalytic site [active] 398578009915 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 398578009916 Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members...; Region: cytidine_deaminase-like; cl00269 398578009917 active site 398578009918 Zn binding site [ion binding]; other site 398578009919 recombination associated protein; Reviewed; Region: rdgC; PRK00321 398578009920 H-NS histone family; Region: Histone_HNS; pfam00816 398578009921 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 398578009922 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 398578009923 Protein of unknown function (DUF2800); Region: DUF2800; pfam10926 398578009924 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 398578009925 putative DNA binding site [nucleotide binding]; other site 398578009926 putative Zn2+ binding site [ion binding]; other site 398578009927 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 398578009928 nucleotide binding site [chemical binding]; other site 398578009929 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 398578009930 hypothetical protein; Provisional; Region: PRK14709 398578009931 D5 N terminal like; Region: D5_N; pfam08706 398578009932 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 398578009933 Protein of unknown function (DUF1441); Region: DUF1441; pfam07278 398578009934 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 398578009935 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 398578009936 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 398578009937 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 398578009938 oligomer interface [polypeptide binding]; other site 398578009939 Clp protease; Region: CLP_protease; pfam00574 398578009940 active site residues [active] 398578009941 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 398578009942 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 398578009943 tape measure domain; Region: tape_meas_nterm; TIGR02675 398578009944 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 398578009945 Predicted chitinase [General function prediction only]; Region: COG3179 398578009946 catalytic residue [active] 398578009947 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 398578009948 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 398578009949 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 398578009950 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 398578009951 active site 398578009952 catalytic residues [active] 398578009953 DNA binding site [nucleotide binding] 398578009954 Int/Topo IB signature motif; other site 398578009955 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 398578009956 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 398578009957 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 398578009958 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 398578009959 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398578009960 Coenzyme A binding pocket [chemical binding]; other site 398578009961 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 398578009962 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 398578009963 putative active site [active] 398578009964 Arc-like DNA binding domain; Region: Arc; pfam03869 398578009965 CsbD-like; Region: CsbD; pfam05532 398578009966 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578009967 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578009968 metal binding site [ion binding]; metal-binding site 398578009969 active site 398578009970 I-site; other site 398578009971 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 398578009972 dimerization interface [polypeptide binding]; other site 398578009973 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398578009974 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578009975 dimer interface [polypeptide binding]; other site 398578009976 putative CheW interface [polypeptide binding]; other site 398578009977 H-NS histone family; Region: Histone_HNS; pfam00816 398578009978 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 398578009979 Cache domain; Region: Cache_1; pfam02743 398578009980 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 398578009981 dimerization interface [polypeptide binding]; other site 398578009982 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398578009983 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578009984 dimer interface [polypeptide binding]; other site 398578009985 putative CheW interface [polypeptide binding]; other site 398578009986 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578009987 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578009988 metal binding site [ion binding]; metal-binding site 398578009989 active site 398578009990 I-site; other site 398578009991 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398578009992 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 398578009993 putative DNA binding site [nucleotide binding]; other site 398578009994 putative Zn2+ binding site [ion binding]; other site 398578009995 AsnC family; Region: AsnC_trans_reg; pfam01037 398578009996 Penicillin amidase; Region: Penicil_amidase; pfam01804 398578009997 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 398578009998 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 398578009999 active site 398578010000 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 398578010001 selenophosphate synthetase; Provisional; Region: PRK00943 398578010002 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 398578010003 dimerization interface [polypeptide binding]; other site 398578010004 putative ATP binding site [chemical binding]; other site 398578010005 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 398578010006 HAMP domain; Region: HAMP; pfam00672 398578010007 dimerization interface [polypeptide binding]; other site 398578010008 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578010009 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578010010 metal binding site [ion binding]; metal-binding site 398578010011 active site 398578010012 I-site; other site 398578010013 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398578010014 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398578010015 ligand binding site [chemical binding]; other site 398578010016 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 398578010017 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 398578010018 G1 box; other site 398578010019 putative GEF interaction site [polypeptide binding]; other site 398578010020 GTP/Mg2+ binding site [chemical binding]; other site 398578010021 Switch I region; other site 398578010022 G2 box; other site 398578010023 G3 box; other site 398578010024 Switch II region; other site 398578010025 G4 box; other site 398578010026 G5 box; other site 398578010027 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 398578010028 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 398578010029 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 398578010030 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 398578010031 selenocysteine synthase; Provisional; Region: PRK04311 398578010032 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 398578010033 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 398578010034 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398578010035 catalytic residue [active] 398578010036 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 398578010037 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 398578010038 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 398578010039 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 398578010040 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 398578010041 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 398578010042 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 398578010043 molybdopterin cofactor binding site; other site 398578010044 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 398578010045 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 398578010046 molybdopterin cofactor binding site; other site 398578010047 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 398578010048 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 398578010049 Domain of unknown function DUF20; Region: UPF0118; pfam01594 398578010050 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 398578010051 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 398578010052 TPP-binding site [chemical binding]; other site 398578010053 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 398578010054 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 398578010055 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 398578010056 E3 interaction surface; other site 398578010057 lipoyl attachment site [posttranslational modification]; other site 398578010058 e3 binding domain; Region: E3_binding; pfam02817 398578010059 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 398578010060 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 398578010061 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398578010062 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 398578010063 Predicted ATPase [General function prediction only]; Region: COG1485 398578010064 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 398578010065 active site 398578010066 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 398578010067 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 398578010068 DEAD_2; Region: DEAD_2; pfam06733 398578010069 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 398578010070 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 398578010071 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 398578010072 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 398578010073 putative active site [active] 398578010074 putative PHP Thumb interface [polypeptide binding]; other site 398578010075 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 398578010076 generic binding surface II; other site 398578010077 generic binding surface I; other site 398578010078 Uncharacterized conserved protein [Function unknown]; Region: COG2127 398578010079 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 398578010080 Clp amino terminal domain; Region: Clp_N; pfam02861 398578010081 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 398578010082 Walker A motif; other site 398578010083 ATP binding site [chemical binding]; other site 398578010084 Walker B motif; other site 398578010085 arginine finger; other site 398578010086 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 398578010087 Walker A motif; other site 398578010088 ATP binding site [chemical binding]; other site 398578010089 Walker B motif; other site 398578010090 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 398578010091 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 398578010092 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 398578010093 putative active site [active] 398578010094 catalytic site [active] 398578010095 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 398578010096 putative active site [active] 398578010097 catalytic site [active] 398578010098 exonuclease I; Provisional; Region: sbcB; PRK11779 398578010099 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 398578010100 active site 398578010101 catalytic site [active] 398578010102 substrate binding site [chemical binding]; other site 398578010103 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 398578010104 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 398578010105 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 398578010106 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398578010107 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_16; cd07263 398578010108 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 398578010109 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 398578010110 S-adenosylmethionine binding site [chemical binding]; other site 398578010111 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 398578010112 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578010113 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 398578010114 putative dimerization interface [polypeptide binding]; other site 398578010115 putative substrate binding pocket [chemical binding]; other site 398578010116 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578010117 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578010118 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 398578010119 putative dimerization interface [polypeptide binding]; other site 398578010120 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 398578010121 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578010122 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398578010123 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398578010124 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 398578010125 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 398578010126 active site 398578010127 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578010128 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 398578010129 hypothetical protein; Provisional; Region: PRK12378 398578010130 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398578010131 active site 398578010132 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 398578010133 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 398578010134 tetramer interface [polypeptide binding]; other site 398578010135 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578010136 catalytic residue [active] 398578010137 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 398578010138 hypothetical protein; Validated; Region: PRK00110 398578010139 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 398578010140 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 398578010141 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 398578010142 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 398578010143 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 398578010144 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 398578010145 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 398578010146 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 398578010147 Maf-like protein; Region: Maf; pfam02545 398578010148 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 398578010149 active site 398578010150 dimer interface [polypeptide binding]; other site 398578010151 ribonuclease G; Provisional; Region: PRK11712 398578010152 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 398578010153 homodimer interface [polypeptide binding]; other site 398578010154 oligonucleotide binding site [chemical binding]; other site 398578010155 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 398578010156 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578010157 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 398578010158 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 398578010159 N-terminal plug; other site 398578010160 ligand-binding site [chemical binding]; other site 398578010161 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398578010162 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578010163 Tannase and feruloyl esterase; Region: Tannase; pfam07519 398578010164 methionine aminotransferase; Validated; Region: PRK09082 398578010165 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 398578010166 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578010167 homodimer interface [polypeptide binding]; other site 398578010168 catalytic residue [active] 398578010169 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 398578010170 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578010171 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 398578010172 substrate binding site [chemical binding]; other site 398578010173 dimerization interface [polypeptide binding]; other site 398578010174 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 398578010175 putative active site [active] 398578010176 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 398578010177 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 398578010178 Predicted permeases [General function prediction only]; Region: COG0795 398578010179 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 398578010180 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 398578010181 multifunctional aminopeptidase A; Provisional; Region: PRK00913 398578010182 interface (dimer of trimers) [polypeptide binding]; other site 398578010183 Substrate-binding/catalytic site; other site 398578010184 Zn-binding sites [ion binding]; other site 398578010185 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 398578010186 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 398578010187 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 398578010188 dimerization interface [polypeptide binding]; other site 398578010189 NAD binding site [chemical binding]; other site 398578010190 ligand binding site [chemical binding]; other site 398578010191 catalytic site [active] 398578010192 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 398578010193 Integrase core domain; Region: rve; pfam00665 398578010194 Integrase core domain; Region: rve_3; pfam13683 398578010195 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 398578010196 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 398578010197 catalytic residue [active] 398578010198 IPTL-CTERM protein sorting domain; Region: IPTL_CTERM; TIGR04174 398578010199 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 398578010200 CrcB-like protein; Region: CRCB; cl09114 398578010201 AAA domain; Region: AAA_33; pfam13671 398578010202 AAA domain; Region: AAA_17; pfam13207 398578010203 fec operon regulator FecR; Reviewed; Region: PRK09774 398578010204 FecR protein; Region: FecR; pfam04773 398578010205 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 398578010206 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398578010207 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 398578010208 DNA binding residues [nucleotide binding] 398578010209 LexA repressor; Validated; Region: PRK00215 398578010210 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 398578010211 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 398578010212 Catalytic site [active] 398578010213 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 398578010214 active site 398578010215 homotetramer interface [polypeptide binding]; other site 398578010216 homodimer interface [polypeptide binding]; other site 398578010217 adenylate kinase; Reviewed; Region: adk; PRK00279 398578010218 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 398578010219 AMP-binding site [chemical binding]; other site 398578010220 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 398578010221 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 398578010222 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 398578010223 Ligand binding site; other site 398578010224 oligomer interface; other site 398578010225 Uncharacterized conserved protein [Function unknown]; Region: COG2835 398578010226 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 398578010227 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 398578010228 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 398578010229 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 398578010230 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 398578010231 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 398578010232 generic binding surface II; other site 398578010233 generic binding surface I; other site 398578010234 superoxide dismutase; Provisional; Region: PRK10543 398578010235 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 398578010236 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 398578010237 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 398578010238 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 398578010239 putative substrate translocation pore; other site 398578010240 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578010241 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578010242 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 398578010243 dimerization interface [polypeptide binding]; other site 398578010244 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578010245 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578010246 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 398578010247 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 398578010248 tetramer interface [polypeptide binding]; other site 398578010249 active site 398578010250 Mg2+/Mn2+ binding site [ion binding]; other site 398578010251 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578010252 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578010253 Propionate catabolism activator; Region: PrpR_N; pfam06506 398578010254 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 398578010255 PAS fold; Region: PAS; pfam00989 398578010256 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 398578010257 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 398578010258 Walker A motif; other site 398578010259 ATP binding site [chemical binding]; other site 398578010260 Walker B motif; other site 398578010261 arginine finger; other site 398578010262 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398578010263 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578010264 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578010265 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 398578010266 putative effector binding pocket; other site 398578010267 dimerization interface [polypeptide binding]; other site 398578010268 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 398578010269 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 398578010270 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398578010271 catalytic residue [active] 398578010272 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 398578010273 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 398578010274 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 398578010275 substrate binding site [chemical binding]; other site 398578010276 ligand binding site [chemical binding]; other site 398578010277 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 398578010278 substrate binding site [chemical binding]; other site 398578010279 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578010280 CHASE domain; Region: CHASE; pfam03924 398578010281 PAS domain S-box; Region: sensory_box; TIGR00229 398578010282 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 398578010283 putative active site [active] 398578010284 heme pocket [chemical binding]; other site 398578010285 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578010286 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578010287 metal binding site [ion binding]; metal-binding site 398578010288 active site 398578010289 I-site; other site 398578010290 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 398578010291 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 398578010292 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 398578010293 Walker A/P-loop; other site 398578010294 ATP binding site [chemical binding]; other site 398578010295 Q-loop/lid; other site 398578010296 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 398578010297 ABC transporter signature motif; other site 398578010298 Walker B; other site 398578010299 D-loop; other site 398578010300 H-loop/switch region; other site 398578010301 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 398578010302 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 398578010303 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 398578010304 nucleotide binding pocket [chemical binding]; other site 398578010305 K-X-D-G motif; other site 398578010306 catalytic site [active] 398578010307 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 398578010308 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 398578010309 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 398578010310 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 398578010311 Dimer interface [polypeptide binding]; other site 398578010312 BRCT sequence motif; other site 398578010313 hypothetical protein; Provisional; Region: PRK10279 398578010314 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 398578010315 active site 398578010316 nucleophile elbow; other site 398578010317 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 398578010318 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 398578010319 nudix motif; other site 398578010320 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 398578010321 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 398578010322 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 398578010323 maleylacetoacetate isomerase; Region: maiA; TIGR01262 398578010324 C-terminal domain interface [polypeptide binding]; other site 398578010325 GSH binding site (G-site) [chemical binding]; other site 398578010326 putative dimer interface [polypeptide binding]; other site 398578010327 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 398578010328 dimer interface [polypeptide binding]; other site 398578010329 N-terminal domain interface [polypeptide binding]; other site 398578010330 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 398578010331 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 398578010332 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 398578010333 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 398578010334 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 398578010335 putative acyltransferase; Provisional; Region: PRK05790 398578010336 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 398578010337 dimer interface [polypeptide binding]; other site 398578010338 active site 398578010339 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 398578010340 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 398578010341 NAD(P) binding site [chemical binding]; other site 398578010342 homotetramer interface [polypeptide binding]; other site 398578010343 homodimer interface [polypeptide binding]; other site 398578010344 active site 398578010345 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 398578010346 catalytic nucleophile [active] 398578010347 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398578010348 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 398578010349 dimer interface [polypeptide binding]; other site 398578010350 conserved gate region; other site 398578010351 putative PBP binding loops; other site 398578010352 ABC-ATPase subunit interface; other site 398578010353 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 398578010354 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 398578010355 dimer interface [polypeptide binding]; other site 398578010356 ABC-ATPase subunit interface; other site 398578010357 putative PBP binding loops; other site 398578010358 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 398578010359 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 398578010360 substrate binding pocket [chemical binding]; other site 398578010361 membrane-bound complex binding site; other site 398578010362 hinge residues; other site 398578010363 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 398578010364 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 398578010365 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 398578010366 putative active site [active] 398578010367 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 398578010368 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398578010369 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398578010370 ABC transporter; Region: ABC_tran_2; pfam12848 398578010371 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398578010372 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578010373 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398578010374 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578010375 active site 398578010376 acyl-CoA synthetase; Validated; Region: PRK06188 398578010377 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578010378 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 398578010379 acyl-activating enzyme (AAE) consensus motif; other site 398578010380 acyl-activating enzyme (AAE) consensus motif; other site 398578010381 putative AMP binding site [chemical binding]; other site 398578010382 putative active site [active] 398578010383 putative CoA binding site [chemical binding]; other site 398578010384 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578010385 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578010386 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 398578010387 dimerization interface [polypeptide binding]; other site 398578010388 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 398578010389 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 398578010390 S-adenosylmethionine binding site [chemical binding]; other site 398578010391 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 398578010392 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 398578010393 metal binding site [ion binding]; metal-binding site 398578010394 dimer interface [polypeptide binding]; other site 398578010395 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 398578010396 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 398578010397 ATP binding site [chemical binding]; other site 398578010398 Walker B motif; other site 398578010399 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 398578010400 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 398578010401 active site 398578010402 substrate binding site [chemical binding]; other site 398578010403 trimer interface [polypeptide binding]; other site 398578010404 CoA binding site [chemical binding]; other site 398578010405 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 398578010406 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 398578010407 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578010408 homodimer interface [polypeptide binding]; other site 398578010409 catalytic residue [active] 398578010410 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398578010411 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578010412 dimer interface [polypeptide binding]; other site 398578010413 putative CheW interface [polypeptide binding]; other site 398578010414 Putative Fe-S cluster; Region: FeS; cl17515 398578010415 4Fe-4S binding domain; Region: Fer4; pfam00037 398578010416 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 398578010417 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 398578010418 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 398578010419 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 398578010420 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 398578010421 FMN binding site [chemical binding]; other site 398578010422 active site 398578010423 catalytic residues [active] 398578010424 substrate binding site [chemical binding]; other site 398578010425 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 398578010426 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 398578010427 Integrase core domain; Region: rve_2; pfam13333 398578010428 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 398578010429 Integrase core domain; Region: rve; pfam00665 398578010430 Transposase; Region: HTH_Tnp_1; pfam01527 398578010431 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 398578010432 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 398578010433 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 398578010434 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 398578010435 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 398578010436 active site 398578010437 phosphorylation site [posttranslational modification] 398578010438 intermolecular recognition site; other site 398578010439 dimerization interface [polypeptide binding]; other site 398578010440 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398578010441 Zn2+ binding site [ion binding]; other site 398578010442 Mg2+ binding site [ion binding]; other site 398578010443 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 398578010444 ANTAR domain; Region: ANTAR; pfam03861 398578010445 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398578010446 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 398578010447 ligand binding site [chemical binding]; other site 398578010448 regulator interaction site; other site 398578010449 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 398578010450 metal ion-dependent adhesion site (MIDAS); other site 398578010451 MoxR-like ATPases [General function prediction only]; Region: COG0714 398578010452 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 398578010453 Walker A motif; other site 398578010454 ATP binding site [chemical binding]; other site 398578010455 Walker B motif; other site 398578010456 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 398578010457 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 398578010458 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 398578010459 multimer interface [polypeptide binding]; other site 398578010460 active site 398578010461 catalytic triad [active] 398578010462 dimer interface [polypeptide binding]; other site 398578010463 Citrate transporter; Region: CitMHS; pfam03600 398578010464 fructuronate transporter; Provisional; Region: PRK10034; cl15264 398578010465 Cytochrome P450; Region: p450; cl12078 398578010466 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 398578010467 Helix-turn-helix domain; Region: HTH_18; pfam12833 398578010468 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 398578010469 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 398578010470 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 398578010471 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 398578010472 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 398578010473 metal binding site 2 [ion binding]; metal-binding site 398578010474 putative DNA binding helix; other site 398578010475 metal binding site 1 [ion binding]; metal-binding site 398578010476 dimer interface [polypeptide binding]; other site 398578010477 structural Zn2+ binding site [ion binding]; other site 398578010478 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 398578010479 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 398578010480 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 398578010481 putative GTP cyclohydrolase; Provisional; Region: PRK13674 398578010482 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 398578010483 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 398578010484 Gamma carbonic anhydrases (CA): Carbonic anhydrases are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism, involving the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide, followed...; Region: LbH_gamma_CA; cd00710 398578010485 trimer interface [polypeptide binding]; other site 398578010486 active site 398578010487 ferric uptake regulator; Provisional; Region: fur; PRK09462 398578010488 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 398578010489 metal binding site 2 [ion binding]; metal-binding site 398578010490 putative DNA binding helix; other site 398578010491 metal binding site 1 [ion binding]; metal-binding site 398578010492 dimer interface [polypeptide binding]; other site 398578010493 structural Zn2+ binding site [ion binding]; other site 398578010494 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 398578010495 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398578010496 MarR family; Region: MarR; pfam01047 398578010497 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 398578010498 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 398578010499 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 398578010500 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 398578010501 N-terminal plug; other site 398578010502 ligand-binding site [chemical binding]; other site 398578010503 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 398578010504 isocitrate dehydrogenase; Validated; Region: PRK07362 398578010505 isocitrate dehydrogenase; Reviewed; Region: PRK07006 398578010506 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 398578010507 active site 398578010508 catalytic triad [active] 398578010509 calcium binding site [ion binding]; other site 398578010510 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 398578010511 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 398578010512 catalytic residues [active] 398578010513 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 398578010514 catalytic motif [active] 398578010515 Catalytic residue [active] 398578010516 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 398578010517 Beta-lactamase; Region: Beta-lactamase; pfam00144 398578010518 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 398578010519 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 398578010520 active site residue [active] 398578010521 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398578010522 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578010523 DNA-binding site [nucleotide binding]; DNA binding site 398578010524 transcriptional regulatory protein PtsJ; Provisional; Region: PRK15481 398578010525 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 398578010526 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578010527 homodimer interface [polypeptide binding]; other site 398578010528 catalytic residue [active] 398578010529 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 398578010530 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 398578010531 putative hydrophobic ligand binding site [chemical binding]; other site 398578010532 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 398578010533 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398578010534 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398578010535 Cupin domain; Region: Cupin_2; pfam07883 398578010536 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398578010537 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578010538 active site 398578010539 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578010540 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 398578010541 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 398578010542 putative dimerization interface [polypeptide binding]; other site 398578010543 putative substrate binding pocket [chemical binding]; other site 398578010544 PAS domain S-box; Region: sensory_box; TIGR00229 398578010545 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398578010546 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 398578010547 heme pocket [chemical binding]; other site 398578010548 putative active site [active] 398578010549 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 398578010550 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398578010551 putative active site [active] 398578010552 heme pocket [chemical binding]; other site 398578010553 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 398578010554 dimer interface [polypeptide binding]; other site 398578010555 phosphorylation site [posttranslational modification] 398578010556 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 398578010557 ATP binding site [chemical binding]; other site 398578010558 Mg2+ binding site [ion binding]; other site 398578010559 G-X-G motif; other site 398578010560 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398578010561 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 398578010562 active site 398578010563 phosphorylation site [posttranslational modification] 398578010564 intermolecular recognition site; other site 398578010565 dimerization interface [polypeptide binding]; other site 398578010566 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398578010567 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 398578010568 trimer interface [polypeptide binding]; other site 398578010569 eyelet of channel; other site 398578010570 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 398578010571 Nuclease-related domain; Region: NERD; pfam08378 398578010572 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 398578010573 ATP binding site [chemical binding]; other site 398578010574 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 398578010575 putative Mg++ binding site [ion binding]; other site 398578010576 Family description; Region: UvrD_C_2; pfam13538 398578010577 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 398578010578 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 398578010579 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 398578010580 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 398578010581 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 398578010582 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578010583 catalytic residue [active] 398578010584 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 398578010585 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 398578010586 Protein of unknown function, DUF488; Region: DUF488; cl01246 398578010587 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398578010588 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578010589 active site 398578010590 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 398578010591 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 398578010592 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 398578010593 tetrameric interface [polypeptide binding]; other site 398578010594 NAD binding site [chemical binding]; other site 398578010595 catalytic residues [active] 398578010596 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398578010597 MarR family; Region: MarR; pfam01047 398578010598 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578010599 hypothetical protein; Provisional; Region: PRK07538 398578010600 hypothetical protein; Provisional; Region: PRK07236 398578010601 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578010602 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 398578010603 C-terminal domain interface [polypeptide binding]; other site 398578010604 GSH binding site (G-site) [chemical binding]; other site 398578010605 putative dimer interface [polypeptide binding]; other site 398578010606 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 398578010607 dimer interface [polypeptide binding]; other site 398578010608 N-terminal domain interface [polypeptide binding]; other site 398578010609 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 398578010610 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 398578010611 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 398578010612 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 398578010613 Cupin domain; Region: Cupin_2; pfam07883 398578010614 salicylate hydroxylase; Provisional; Region: PRK08163 398578010615 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398578010616 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398578010617 MarR family; Region: MarR_2; pfam12802 398578010618 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578010619 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578010620 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 398578010621 dimerization interface [polypeptide binding]; other site 398578010622 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 398578010623 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 398578010624 active site 398578010625 nucleophile elbow; other site 398578010626 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 398578010627 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 398578010628 dimer interface [polypeptide binding]; other site 398578010629 active site 398578010630 glycine-pyridoxal phosphate binding site [chemical binding]; other site 398578010631 folate binding site [chemical binding]; other site 398578010632 acetylornithine aminotransferase; Provisional; Region: PRK02627 398578010633 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 398578010634 inhibitor-cofactor binding pocket; inhibition site 398578010635 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578010636 catalytic residue [active] 398578010637 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 398578010638 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398578010639 catalytic residue [active] 398578010640 benzoate transporter; Region: benE; TIGR00843 398578010641 Benzoate membrane transport protein; Region: BenE; pfam03594 398578010642 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 398578010643 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578010644 DNA-binding site [nucleotide binding]; DNA binding site 398578010645 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 398578010646 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578010647 homodimer interface [polypeptide binding]; other site 398578010648 catalytic residue [active] 398578010649 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 398578010650 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 398578010651 dimer interface [polypeptide binding]; other site 398578010652 active site 398578010653 glycine-pyridoxal phosphate binding site [chemical binding]; other site 398578010654 folate binding site [chemical binding]; other site 398578010655 P-aminobenzoate N-oxygenase AurF; Region: AurF; pfam11583 398578010656 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 398578010657 FAD binding pocket [chemical binding]; other site 398578010658 conserved FAD binding motif [chemical binding]; other site 398578010659 phosphate binding motif [ion binding]; other site 398578010660 beta-alpha-beta structure motif; other site 398578010661 NAD binding pocket [chemical binding]; other site 398578010662 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 398578010663 catalytic loop [active] 398578010664 iron binding site [ion binding]; other site 398578010665 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 398578010666 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 398578010667 catalytic triad [active] 398578010668 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 398578010669 H-NS histone family; Region: Histone_HNS; pfam00816 398578010670 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 398578010671 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 398578010672 putative trimer interface [polypeptide binding]; other site 398578010673 putative CoA binding site [chemical binding]; other site 398578010674 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 398578010675 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 398578010676 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 398578010677 RHS protein; Region: RHS; pfam03527 398578010678 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 398578010679 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 398578010680 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 398578010681 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 398578010682 RHS protein; Region: RHS; pfam03527 398578010683 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 398578010684 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 398578010685 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 398578010686 hypothetical protein; Provisional; Region: PRK02877 398578010687 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 398578010688 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 398578010689 putative binding site residues; other site 398578010690 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 398578010691 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 398578010692 N-terminal plug; other site 398578010693 ligand-binding site [chemical binding]; other site 398578010694 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 398578010695 non-specific DNA binding site [nucleotide binding]; other site 398578010696 salt bridge; other site 398578010697 sequence-specific DNA binding site [nucleotide binding]; other site 398578010698 Cupin domain; Region: Cupin_2; pfam07883 398578010699 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398578010700 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578010701 Predicted transcriptional regulators [Transcription]; Region: COG1733 398578010702 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 398578010703 hypothetical protein; Provisional; Region: PRK10039 398578010704 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 398578010705 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 398578010706 N-terminal plug; other site 398578010707 ligand-binding site [chemical binding]; other site 398578010708 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 398578010709 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 398578010710 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 398578010711 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398578010712 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 398578010713 putative substrate translocation pore; other site 398578010714 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 398578010715 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 398578010716 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398578010717 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578010718 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398578010719 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398578010720 MarR family; Region: MarR; pfam01047 398578010721 MarR family; Region: MarR_2; cl17246 398578010722 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 398578010723 Predicted membrane protein [Function unknown]; Region: COG4541 398578010724 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398578010725 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 398578010726 dimerization interface [polypeptide binding]; other site 398578010727 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578010728 dimer interface [polypeptide binding]; other site 398578010729 putative CheW interface [polypeptide binding]; other site 398578010730 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 398578010731 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578010732 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 398578010733 acyl-activating enzyme (AAE) consensus motif; other site 398578010734 acyl-activating enzyme (AAE) consensus motif; other site 398578010735 putative AMP binding site [chemical binding]; other site 398578010736 putative active site [active] 398578010737 putative CoA binding site [chemical binding]; other site 398578010738 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398578010739 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578010740 DNA-binding site [nucleotide binding]; DNA binding site 398578010741 FCD domain; Region: FCD; pfam07729 398578010742 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 398578010743 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 398578010744 active site 398578010745 substrate binding site [chemical binding]; other site 398578010746 coenzyme B12 binding site [chemical binding]; other site 398578010747 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 398578010748 B12 binding site [chemical binding]; other site 398578010749 cobalt ligand [ion binding]; other site 398578010750 membrane ATPase/protein kinase; Provisional; Region: PRK09435 398578010751 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 398578010752 Walker A; other site 398578010753 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 398578010754 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 398578010755 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 398578010756 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 398578010757 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398578010758 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 398578010759 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 398578010760 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 398578010761 carboxyltransferase (CT) interaction site; other site 398578010762 biotinylation site [posttranslational modification]; other site 398578010763 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 398578010764 oligomeric interface; other site 398578010765 putative active site [active] 398578010766 homodimer interface [polypeptide binding]; other site 398578010767 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 398578010768 Response regulator receiver domain; Region: Response_reg; pfam00072 398578010769 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 398578010770 active site 398578010771 phosphorylation site [posttranslational modification] 398578010772 intermolecular recognition site; other site 398578010773 dimerization interface [polypeptide binding]; other site 398578010774 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398578010775 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398578010776 DNA binding site [nucleotide binding] 398578010777 domain linker motif; other site 398578010778 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 398578010779 putative ligand binding site [chemical binding]; other site 398578010780 putative dimerization interface [polypeptide binding]; other site 398578010781 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 398578010782 AAA domain; Region: AAA_33; pfam13671 398578010783 ATP-binding site [chemical binding]; other site 398578010784 Gluconate-6-phosphate binding site [chemical binding]; other site 398578010785 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 398578010786 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 398578010787 DctM-like transporters; Region: DctM; pfam06808 398578010788 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 398578010789 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 398578010790 phosphogluconate dehydratase; Validated; Region: PRK09054 398578010791 6-phosphogluconate dehydratase; Region: edd; TIGR01196 398578010792 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 398578010793 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 398578010794 active site 398578010795 intersubunit interface [polypeptide binding]; other site 398578010796 catalytic residue [active] 398578010797 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398578010798 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578010799 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578010800 dimer interface [polypeptide binding]; other site 398578010801 putative CheW interface [polypeptide binding]; other site 398578010802 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578010803 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578010804 metal binding site [ion binding]; metal-binding site 398578010805 active site 398578010806 I-site; other site 398578010807 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 398578010808 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578010809 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578010810 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 398578010811 dimerization interface [polypeptide binding]; other site 398578010812 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578010813 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398578010814 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398578010815 enoyl-CoA hydratase; Provisional; Region: PRK06144 398578010816 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 398578010817 substrate binding site [chemical binding]; other site 398578010818 oxyanion hole (OAH) forming residues; other site 398578010819 trimer interface [polypeptide binding]; other site 398578010820 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 398578010821 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 398578010822 chaperone protein DnaK; Region: prok_dnaK; TIGR02350 398578010823 Nucleotide-binding domain of Escherichia coli HscC and similar proteins; Region: HscC_like_NBD; cd10235 398578010824 nucleotide binding site [chemical binding]; other site 398578010825 putative NEF/HSP70 interaction site [polypeptide binding]; other site 398578010826 SBD interface [polypeptide binding]; other site 398578010827 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 398578010828 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 398578010829 putative sugar binding sites [chemical binding]; other site 398578010830 Q-X-W motif; other site 398578010831 Uncharacterized conserved protein [Function unknown]; Region: COG1434 398578010832 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 398578010833 putative active site [active] 398578010834 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 398578010835 dimer interface [polypeptide binding]; other site 398578010836 substrate binding site [chemical binding]; other site 398578010837 metal binding site [ion binding]; metal-binding site 398578010838 Part of AAA domain; Region: AAA_19; pfam13245 398578010839 Family description; Region: UvrD_C_2; pfam13538 398578010840 biotin synthase; Region: bioB; TIGR00433 398578010841 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 398578010842 FeS/SAM binding site; other site 398578010843 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 398578010844 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 398578010845 active site 398578010846 DNA binding site [nucleotide binding] 398578010847 Int/Topo IB signature motif; other site 398578010848 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 398578010849 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398578010850 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578010851 DNA-binding site [nucleotide binding]; DNA binding site 398578010852 FCD domain; Region: FCD; pfam07729 398578010853 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 398578010854 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 398578010855 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578010856 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 398578010857 DNA-binding site [nucleotide binding]; DNA binding site 398578010858 FCD domain; Region: FCD; pfam07729 398578010859 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578010860 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 398578010861 dimerization interface [polypeptide binding]; other site 398578010862 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578010863 dimer interface [polypeptide binding]; other site 398578010864 putative CheW interface [polypeptide binding]; other site 398578010865 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 398578010866 Beta-lactamase; Region: Beta-lactamase; pfam00144 398578010867 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578010868 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578010869 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 398578010870 putative effector binding pocket; other site 398578010871 dimerization interface [polypeptide binding]; other site 398578010872 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 398578010873 putative active site [active] 398578010874 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 398578010875 dimer interface [polypeptide binding]; other site 398578010876 [2Fe-2S] cluster binding site [ion binding]; other site 398578010877 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 398578010878 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 398578010879 Walker A/P-loop; other site 398578010880 ATP binding site [chemical binding]; other site 398578010881 Q-loop/lid; other site 398578010882 ABC transporter signature motif; other site 398578010883 Walker B; other site 398578010884 D-loop; other site 398578010885 H-loop/switch region; other site 398578010886 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 398578010887 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 398578010888 ABC-ATPase subunit interface; other site 398578010889 dimer interface [polypeptide binding]; other site 398578010890 putative PBP binding regions; other site 398578010891 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 398578010892 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 398578010893 putative ligand binding residues [chemical binding]; other site 398578010894 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 398578010895 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 398578010896 N-terminal plug; other site 398578010897 ligand-binding site [chemical binding]; other site 398578010898 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; cl17606 398578010899 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 398578010900 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 398578010901 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 398578010902 Walker A motif; other site 398578010903 ATP binding site [chemical binding]; other site 398578010904 Walker B motif; other site 398578010905 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 398578010906 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 398578010907 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578010908 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 398578010909 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 398578010910 active site 398578010911 phosphorylation site [posttranslational modification] 398578010912 intermolecular recognition site; other site 398578010913 dimerization interface [polypeptide binding]; other site 398578010914 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 398578010915 DNA binding site [nucleotide binding] 398578010916 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 398578010917 sensor protein QseC; Provisional; Region: PRK10337 398578010918 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 398578010919 ATP binding site [chemical binding]; other site 398578010920 Mg2+ binding site [ion binding]; other site 398578010921 G-X-G motif; other site 398578010922 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 398578010923 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 398578010924 RNA polymerase sigma factor; Provisional; Region: PRK12537 398578010925 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398578010926 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 398578010927 DNA binding residues [nucleotide binding] 398578010928 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 398578010929 Anti-sigma-K factor rskA; Region: RskA; pfam10099 398578010930 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398578010931 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 398578010932 trimer interface [polypeptide binding]; other site 398578010933 eyelet of channel; other site 398578010934 SnoaL-like domain; Region: SnoaL_4; pfam13577 398578010935 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578010936 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578010937 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578010938 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578010939 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 398578010940 dimerization interface [polypeptide binding]; other site 398578010941 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398578010942 Subunit B of the Class III extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of protocatechuate; Region: PCA_45_Dioxygenase_B; cd07364 398578010943 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 398578010944 active site 398578010945 Fe(II) binding site [ion binding]; other site 398578010946 dimer interface [polypeptide binding]; other site 398578010947 tetramer interface [polypeptide binding]; other site 398578010948 The A subunit of Protocatechuate 4,5-dioxygenase (LigAB) is the smaller, non-catalytic subunit; Region: PCA_45_Doxase_A; cd07924 398578010949 tetramer interface [polypeptide binding]; other site 398578010950 dimer interface [polypeptide binding]; other site 398578010951 active site 398578010952 benzoate transport; Region: 2A0115; TIGR00895 398578010953 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 398578010954 putative substrate translocation pore; other site 398578010955 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 398578010956 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 398578010957 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398578010958 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 398578010959 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 398578010960 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 398578010961 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398578010962 ATPase involved in DNA repair; Region: DUF3686; pfam12458 398578010963 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 398578010964 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 398578010965 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 398578010966 PspA/IM30 family; Region: PspA_IM30; pfam04012 398578010967 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 398578010968 Cache domain; Region: Cache_1; pfam02743 398578010969 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 398578010970 dimerization interface [polypeptide binding]; other site 398578010971 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578010972 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578010973 metal binding site [ion binding]; metal-binding site 398578010974 active site 398578010975 I-site; other site 398578010976 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 398578010977 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 398578010978 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; cl00391 398578010979 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398578010980 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 398578010981 active site 398578010982 metal binding site [ion binding]; metal-binding site 398578010983 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 398578010984 active site 398578010985 metal binding site [ion binding]; metal-binding site 398578010986 Response regulator receiver domain; Region: Response_reg; pfam00072 398578010987 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 398578010988 active site 398578010989 phosphorylation site [posttranslational modification] 398578010990 intermolecular recognition site; other site 398578010991 dimerization interface [polypeptide binding]; other site 398578010992 Response regulator receiver domain; Region: Response_reg; pfam00072 398578010993 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 398578010994 active site 398578010995 phosphorylation site [posttranslational modification] 398578010996 intermolecular recognition site; other site 398578010997 dimerization interface [polypeptide binding]; other site 398578010998 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398578010999 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 398578011000 dimer interface [polypeptide binding]; other site 398578011001 phosphorylation site [posttranslational modification] 398578011002 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 398578011003 ATP binding site [chemical binding]; other site 398578011004 Mg2+ binding site [ion binding]; other site 398578011005 G-X-G motif; other site 398578011006 CheB methylesterase; Region: CheB_methylest; pfam01339 398578011007 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 398578011008 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 398578011009 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 398578011010 CHASE3 domain; Region: CHASE3; pfam05227 398578011011 GAF domain; Region: GAF_2; pfam13185 398578011012 GAF domain; Region: GAF; pfam01590 398578011013 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 398578011014 dimer interface [polypeptide binding]; other site 398578011015 phosphorylation site [posttranslational modification] 398578011016 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 398578011017 ATP binding site [chemical binding]; other site 398578011018 Mg2+ binding site [ion binding]; other site 398578011019 G-X-G motif; other site 398578011020 Response regulator receiver domain; Region: Response_reg; pfam00072 398578011021 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 398578011022 active site 398578011023 phosphorylation site [posttranslational modification] 398578011024 intermolecular recognition site; other site 398578011025 dimerization interface [polypeptide binding]; other site 398578011026 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398578011027 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 398578011028 active site 398578011029 phosphorylation site [posttranslational modification] 398578011030 intermolecular recognition site; other site 398578011031 dimerization interface [polypeptide binding]; other site 398578011032 Response regulator receiver domain; Region: Response_reg; pfam00072 398578011033 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 398578011034 active site 398578011035 phosphorylation site [posttranslational modification] 398578011036 intermolecular recognition site; other site 398578011037 dimerization interface [polypeptide binding]; other site 398578011038 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398578011039 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 398578011040 dimerization interface [polypeptide binding]; other site 398578011041 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398578011042 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578011043 dimer interface [polypeptide binding]; other site 398578011044 putative CheW interface [polypeptide binding]; other site 398578011045 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398578011046 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578011047 DNA-binding site [nucleotide binding]; DNA binding site 398578011048 FCD domain; Region: FCD; pfam07729 398578011049 Protein of unknown function (DUF796); Region: DUF796; pfam05638 398578011050 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 398578011051 Catalytic domain of Protein Kinases; Region: PKc; cd00180 398578011052 active site 398578011053 ATP binding site [chemical binding]; other site 398578011054 substrate binding site [chemical binding]; other site 398578011055 activation loop (A-loop); other site 398578011056 sec-independent translocase; Provisional; Region: tatB; PRK00404 398578011057 PEGA domain; Region: PEGA; pfam08308 398578011058 PEGA domain; Region: PEGA; pfam08308 398578011059 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 398578011060 phosphopeptide binding site; other site 398578011061 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 398578011062 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 398578011063 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 398578011064 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 398578011065 hypothetical protein; Provisional; Region: PRK07033 398578011066 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 398578011067 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398578011068 ligand binding site [chemical binding]; other site 398578011069 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 398578011070 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 398578011071 G1 box; other site 398578011072 GTP/Mg2+ binding site [chemical binding]; other site 398578011073 G2 box; other site 398578011074 G3 box; other site 398578011075 Switch II region; other site 398578011076 G4 box; other site 398578011077 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 398578011078 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 398578011079 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; pfam09867 398578011080 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 398578011081 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 398578011082 Protein of unknown function (DUF770); Region: DUF770; pfam05591 398578011083 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 398578011084 Protein of unknown function (DUF877); Region: DUF877; pfam05943 398578011085 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 398578011086 ImpE protein; Region: ImpE; pfam07024 398578011087 Protein of unknown function (DUF4087); Region: DUF4087; pfam13316 398578011088 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 398578011089 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 398578011090 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 398578011091 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 398578011092 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 398578011093 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 398578011094 Walker A motif; other site 398578011095 ATP binding site [chemical binding]; other site 398578011096 Walker B motif; other site 398578011097 arginine finger; other site 398578011098 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 398578011099 Walker A motif; other site 398578011100 ATP binding site [chemical binding]; other site 398578011101 Walker B motif; other site 398578011102 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 398578011103 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 398578011104 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 398578011105 Active site serine [active] 398578011106 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 398578011107 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 398578011108 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 398578011109 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 398578011110 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 398578011111 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 398578011112 RHS Repeat; Region: RHS_repeat; cl11982 398578011113 RHS Repeat; Region: RHS_repeat; cl11982 398578011114 RHS Repeat; Region: RHS_repeat; pfam05593 398578011115 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 398578011116 putative PBP binding loops; other site 398578011117 dimer interface [polypeptide binding]; other site 398578011118 ABC-ATPase subunit interface; other site 398578011119 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 398578011120 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398578011121 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 398578011122 AMP-binding domain protein; Validated; Region: PRK07529 398578011123 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578011124 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 398578011125 acyl-activating enzyme (AAE) consensus motif; other site 398578011126 acyl-activating enzyme (AAE) consensus motif; other site 398578011127 putative AMP binding site [chemical binding]; other site 398578011128 putative active site [active] 398578011129 putative CoA binding site [chemical binding]; other site 398578011130 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578011131 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578011132 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578011133 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 398578011134 putative effector binding pocket; other site 398578011135 dimerization interface [polypeptide binding]; other site 398578011136 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578011137 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578011138 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 398578011139 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 398578011140 FMN binding site [chemical binding]; other site 398578011141 active site 398578011142 substrate binding site [chemical binding]; other site 398578011143 catalytic residue [active] 398578011144 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 398578011145 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 398578011146 NAD binding site [chemical binding]; other site 398578011147 active site 398578011148 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 398578011149 SprT homologues; Region: SprT; cl01182 398578011150 SprT-like family; Region: SprT-like; pfam10263 398578011151 OsmC-like protein; Region: OsmC; cl00767 398578011152 Domain of unknown function (DUF4288); Region: DUF4288; pfam14119 398578011153 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398578011154 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 398578011155 Restriction endonuclease; Region: Mrr_cat; pfam04471 398578011156 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 398578011157 Uncharacterized conserved protein [Function unknown]; Region: COG3339 398578011158 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398578011159 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398578011160 DNA binding site [nucleotide binding] 398578011161 domain linker motif; other site 398578011162 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 398578011163 putative dimerization interface [polypeptide binding]; other site 398578011164 putative ligand binding site [chemical binding]; other site 398578011165 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578011166 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 398578011167 dihydroxy-acid dehydratase; Provisional; Region: PRK13016 398578011168 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 398578011169 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 398578011170 TrkA-C domain; Region: TrkA_C; pfam02080 398578011171 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 398578011172 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 398578011173 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 398578011174 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578011175 homodimer interface [polypeptide binding]; other site 398578011176 catalytic residue [active] 398578011177 EamA-like transporter family; Region: EamA; cl17759 398578011178 EamA-like transporter family; Region: EamA; pfam00892 398578011179 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578011180 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578011181 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 398578011182 dimerization interface [polypeptide binding]; other site 398578011183 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 398578011184 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 398578011185 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578011186 putative membrane fusion protein; Region: TIGR02828 398578011187 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578011188 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578011189 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 398578011190 putative FMN binding site [chemical binding]; other site 398578011191 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 398578011192 Domain of unknown function (DUF4287); Region: DUF4287; pfam14117 398578011193 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 398578011194 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 398578011195 Epoxide hydrolase N terminus; Region: EHN; pfam06441 398578011196 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398578011197 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 398578011198 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 398578011199 Metal-binding active site; metal-binding site 398578011200 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 398578011201 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578011202 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578011203 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398578011204 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578011205 active site 398578011206 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398578011207 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398578011208 Cytochrome c; Region: Cytochrom_C; pfam00034 398578011209 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 398578011210 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398578011211 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 398578011212 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398578011213 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398578011214 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 398578011215 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2; pfam00111 398578011216 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 398578011217 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398578011218 H-NS histone family; Region: Histone_HNS; pfam00816 398578011219 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 398578011220 Hpt domain; Region: Hpt; pfam01627 398578011221 transcriptional regulator RcsB; Provisional; Region: PRK10840 398578011222 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 398578011223 active site 398578011224 phosphorylation site [posttranslational modification] 398578011225 intermolecular recognition site; other site 398578011226 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 398578011227 DNA binding residues [nucleotide binding] 398578011228 dimerization interface [polypeptide binding]; other site 398578011229 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 398578011230 dimer interface [polypeptide binding]; other site 398578011231 phosphorylation site [posttranslational modification] 398578011232 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 398578011233 ATP binding site [chemical binding]; other site 398578011234 Mg2+ binding site [ion binding]; other site 398578011235 G-X-G motif; other site 398578011236 Response regulator receiver domain; Region: Response_reg; pfam00072 398578011237 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 398578011238 active site 398578011239 phosphorylation site [posttranslational modification] 398578011240 intermolecular recognition site; other site 398578011241 dimerization interface [polypeptide binding]; other site 398578011242 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 398578011243 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398578011244 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 398578011245 active site 398578011246 phosphorylation site [posttranslational modification] 398578011247 intermolecular recognition site; other site 398578011248 dimerization interface [polypeptide binding]; other site 398578011249 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 398578011250 DNA binding residues [nucleotide binding] 398578011251 dimerization interface [polypeptide binding]; other site 398578011252 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398578011253 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 398578011254 dimer interface [polypeptide binding]; other site 398578011255 active site 398578011256 metal binding site [ion binding]; metal-binding site 398578011257 glutathione binding site [chemical binding]; other site 398578011258 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 398578011259 ligand binding site [chemical binding]; other site 398578011260 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 398578011261 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 398578011262 putative active site pocket [active] 398578011263 dimerization interface [polypeptide binding]; other site 398578011264 putative catalytic residue [active] 398578011265 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 398578011266 E-class dimer interface [polypeptide binding]; other site 398578011267 P-class dimer interface [polypeptide binding]; other site 398578011268 active site 398578011269 Cu2+ binding site [ion binding]; other site 398578011270 Zn2+ binding site [ion binding]; other site 398578011271 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 398578011272 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 398578011273 Ligand binding site; other site 398578011274 metal-binding site 398578011275 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 398578011276 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 398578011277 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 398578011278 Predicted permeases [General function prediction only]; Region: COG0679 398578011279 Pirin-related protein [General function prediction only]; Region: COG1741 398578011280 Pirin; Region: Pirin; pfam02678 398578011281 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 398578011282 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 398578011283 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 398578011284 active site 398578011285 Int/Topo IB signature motif; other site 398578011286 DNA binding site [nucleotide binding] 398578011287 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 398578011288 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 398578011289 N-terminal plug; other site 398578011290 ligand-binding site [chemical binding]; other site 398578011291 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 398578011292 putative DNA binding helix; other site 398578011293 structural Zn2+ binding site [ion binding]; other site 398578011294 methionine sulfoxide reductase A; Provisional; Region: PRK14054 398578011295 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578011296 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578011297 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 398578011298 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398578011299 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578011300 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398578011301 Protein export membrane protein; Region: SecD_SecF; cl14618 398578011302 protein-L-isoaspartate O-methyltransferase; Provisional; Region: PRK13944 398578011303 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 398578011304 S-adenosylmethionine binding site [chemical binding]; other site 398578011305 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 398578011306 active site residue [active] 398578011307 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 398578011308 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398578011309 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 398578011310 active site 398578011311 phosphorylation site [posttranslational modification] 398578011312 intermolecular recognition site; other site 398578011313 dimerization interface [polypeptide binding]; other site 398578011314 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 398578011315 DNA binding site [nucleotide binding] 398578011316 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398578011317 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 398578011318 dimer interface [polypeptide binding]; other site 398578011319 phosphorylation site [posttranslational modification] 398578011320 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 398578011321 ATP binding site [chemical binding]; other site 398578011322 Mg2+ binding site [ion binding]; other site 398578011323 G-X-G motif; other site 398578011324 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 398578011325 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 398578011326 oligomeric interface; other site 398578011327 putative active site [active] 398578011328 homodimer interface [polypeptide binding]; other site 398578011329 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 398578011330 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 398578011331 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 398578011332 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 398578011333 active site 398578011334 substrate binding site [chemical binding]; other site 398578011335 metal binding site [ion binding]; metal-binding site 398578011336 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 398578011337 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578011338 acyl-activating enzyme (AAE) consensus motif; other site 398578011339 AMP binding site [chemical binding]; other site 398578011340 active site 398578011341 CoA binding site [chemical binding]; other site 398578011342 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 398578011343 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 398578011344 Isochorismatase family; Region: Isochorismatase; pfam00857 398578011345 catalytic triad [active] 398578011346 dimer interface [polypeptide binding]; other site 398578011347 conserved cis-peptide bond; other site 398578011348 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 398578011349 NlpC/P60 family; Region: NLPC_P60; pfam00877 398578011350 Transglycosylase associated protein; Region: Transgly_assoc; pfam04226 398578011351 putative S-transferase; Provisional; Region: PRK11752 398578011352 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 398578011353 C-terminal domain interface [polypeptide binding]; other site 398578011354 GSH binding site (G-site) [chemical binding]; other site 398578011355 dimer interface [polypeptide binding]; other site 398578011356 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 398578011357 dimer interface [polypeptide binding]; other site 398578011358 N-terminal domain interface [polypeptide binding]; other site 398578011359 active site 398578011360 EVE domain; Region: EVE; cl00728 398578011361 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 398578011362 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 398578011363 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398578011364 putative substrate translocation pore; other site 398578011365 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398578011366 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398578011367 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578011368 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 398578011369 dimerization interface [polypeptide binding]; other site 398578011370 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 398578011371 E3 interaction surface; other site 398578011372 lipoyl attachment site [posttranslational modification]; other site 398578011373 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 398578011374 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398578011375 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 398578011376 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 398578011377 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 398578011378 E3 interaction surface; other site 398578011379 lipoyl attachment site [posttranslational modification]; other site 398578011380 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 398578011381 E3 interaction surface; other site 398578011382 lipoyl attachment site [posttranslational modification]; other site 398578011383 e3 binding domain; Region: E3_binding; pfam02817 398578011384 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 398578011385 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 398578011386 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 398578011387 dimer interface [polypeptide binding]; other site 398578011388 TPP-binding site [chemical binding]; other site 398578011389 PAS domain S-box; Region: sensory_box; TIGR00229 398578011390 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 398578011391 putative active site [active] 398578011392 heme pocket [chemical binding]; other site 398578011393 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 398578011394 dimer interface [polypeptide binding]; other site 398578011395 phosphorylation site [posttranslational modification] 398578011396 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 398578011397 ATP binding site [chemical binding]; other site 398578011398 Mg2+ binding site [ion binding]; other site 398578011399 G-X-G motif; other site 398578011400 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 398578011401 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 398578011402 active site 398578011403 phosphorylation site [posttranslational modification] 398578011404 intermolecular recognition site; other site 398578011405 dimerization interface [polypeptide binding]; other site 398578011406 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 398578011407 DNA binding residues [nucleotide binding] 398578011408 dimerization interface [polypeptide binding]; other site 398578011409 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 398578011410 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 398578011411 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 398578011412 homodimer interface [polypeptide binding]; other site 398578011413 NADP binding site [chemical binding]; other site 398578011414 substrate binding site [chemical binding]; other site 398578011415 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 398578011416 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 398578011417 active site 398578011418 Zn binding site [ion binding]; other site 398578011419 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 398578011420 catalytic residues [active] 398578011421 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 398578011422 tetramer (dimer of dimers) interface [polypeptide binding]; other site 398578011423 active site 398578011424 dimer interface [polypeptide binding]; other site 398578011425 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 398578011426 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 398578011427 quinone interaction residues [chemical binding]; other site 398578011428 active site 398578011429 catalytic residues [active] 398578011430 FMN binding site [chemical binding]; other site 398578011431 substrate binding site [chemical binding]; other site 398578011432 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 398578011433 hydroxyglutarate oxidase; Provisional; Region: PRK11728 398578011434 Predicted dehydrogenase [General function prediction only]; Region: COG0579 398578011435 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 398578011436 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 398578011437 active site 398578011438 catalytic site [active] 398578011439 substrate binding site [chemical binding]; other site 398578011440 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 398578011441 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 398578011442 catalytic loop [active] 398578011443 iron binding site [ion binding]; other site 398578011444 chaperone protein HscA; Provisional; Region: hscA; PRK05183 398578011445 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 398578011446 nucleotide binding site [chemical binding]; other site 398578011447 putative NEF/HSP70 interaction site [polypeptide binding]; other site 398578011448 SBD interface [polypeptide binding]; other site 398578011449 co-chaperone HscB; Provisional; Region: hscB; PRK03578 398578011450 DnaJ domain; Region: DnaJ; pfam00226 398578011451 HSP70 interaction site [polypeptide binding]; other site 398578011452 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 398578011453 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 398578011454 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 398578011455 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 398578011456 trimerization site [polypeptide binding]; other site 398578011457 active site 398578011458 cysteine desulfurase; Provisional; Region: PRK14012 398578011459 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 398578011460 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398578011461 catalytic residue [active] 398578011462 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 398578011463 Rrf2 family protein; Region: rrf2_super; TIGR00738 398578011464 excinuclease ABC subunit B; Provisional; Region: PRK05298 398578011465 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 398578011466 ATP binding site [chemical binding]; other site 398578011467 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 398578011468 nucleotide binding region [chemical binding]; other site 398578011469 ATP-binding site [chemical binding]; other site 398578011470 Ultra-violet resistance protein B; Region: UvrB; pfam12344 398578011471 UvrB/uvrC motif; Region: UVR; pfam02151 398578011472 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 398578011473 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 398578011474 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578011475 homodimer interface [polypeptide binding]; other site 398578011476 catalytic residue [active] 398578011477 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398578011478 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398578011479 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 398578011480 PAS domain; Region: PAS_9; pfam13426 398578011481 putative active site [active] 398578011482 heme pocket [chemical binding]; other site 398578011483 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578011484 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578011485 metal binding site [ion binding]; metal-binding site 398578011486 active site 398578011487 I-site; other site 398578011488 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 398578011489 hypothetical protein; Provisional; Region: PRK01254 398578011490 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 398578011491 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 398578011492 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 398578011493 Cupin; Region: Cupin_6; pfam12852 398578011494 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578011495 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398578011496 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578011497 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 398578011498 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398578011499 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398578011500 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 398578011501 DNA binding residues [nucleotide binding] 398578011502 dimerization interface [polypeptide binding]; other site 398578011503 Uncharacterized conserved protein [Function unknown]; Region: COG1739 398578011504 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 398578011505 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 398578011506 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 398578011507 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 398578011508 metal binding site [ion binding]; metal-binding site 398578011509 putative dimer interface [polypeptide binding]; other site 398578011510 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578011511 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 398578011512 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578011513 LysR substrate binding domain; Region: LysR_substrate; pfam03466 398578011514 dimerization interface [polypeptide binding]; other site 398578011515 Predicted integral membrane proteins containing uncharacterized repeats [Function unknown]; Region: COG5563 398578011516 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 398578011517 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398578011518 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 398578011519 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 398578011520 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 398578011521 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 398578011522 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 398578011523 potassium uptake protein; Region: kup; TIGR00794 398578011524 Chromate transporter; Region: Chromate_transp; pfam02417 398578011525 Chromate transporter; Region: Chromate_transp; pfam02417 398578011526 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 398578011527 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398578011528 active site 398578011529 catalytic tetrad [active] 398578011530 NAD-dependent deacetylase; Provisional; Region: PRK00481 398578011531 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 398578011532 NAD+ binding site [chemical binding]; other site 398578011533 substrate binding site [chemical binding]; other site 398578011534 Zn binding site [ion binding]; other site 398578011535 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578011536 WHG domain; Region: WHG; pfam13305 398578011537 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 398578011538 dimer interface [polypeptide binding]; other site 398578011539 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 398578011540 dimer interface [polypeptide binding]; other site 398578011541 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398578011542 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 398578011543 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 398578011544 putative hydrophobic ligand binding site [chemical binding]; other site 398578011545 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 398578011546 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 398578011547 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 398578011548 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 398578011549 serine/threonine transporter SstT; Provisional; Region: PRK13628 398578011550 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398578011551 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 398578011552 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398578011553 Walker A/P-loop; other site 398578011554 ATP binding site [chemical binding]; other site 398578011555 Q-loop/lid; other site 398578011556 ABC transporter signature motif; other site 398578011557 Walker B; other site 398578011558 D-loop; other site 398578011559 H-loop/switch region; other site 398578011560 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 398578011561 active site 398578011562 catalytic triad [active] 398578011563 oxyanion hole [active] 398578011564 switch loop; other site 398578011565 Predicted integral membrane protein (DUF2189); Region: DUF2189; pfam09955 398578011566 PhoD-like phosphatase; Region: PhoD; pfam09423 398578011567 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 398578011568 putative active site [active] 398578011569 putative metal binding site [ion binding]; other site 398578011570 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 398578011571 cystathionine beta-lyase; Provisional; Region: PRK07050 398578011572 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 398578011573 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398578011574 catalytic residue [active] 398578011575 BON domain; Region: BON; pfam04972 398578011576 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 398578011577 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 398578011578 Sulfate transporter family; Region: Sulfate_transp; pfam00916 398578011579 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 398578011580 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578011581 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578011582 metal binding site [ion binding]; metal-binding site 398578011583 active site 398578011584 I-site; other site 398578011585 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 398578011586 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 398578011587 P-loop; other site 398578011588 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 398578011589 rhodanese superfamily protein; Provisional; Region: PRK05320 398578011590 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 398578011591 active site residue [active] 398578011592 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 398578011593 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398578011594 Predicted membrane protein [Function unknown]; Region: COG2259 398578011595 Pirin-related protein [General function prediction only]; Region: COG1741 398578011596 Pirin; Region: Pirin; pfam02678 398578011597 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578011598 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578011599 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 398578011600 dimerization interface [polypeptide binding]; other site 398578011601 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 398578011602 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398578011603 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 398578011604 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 398578011605 active site 398578011606 HIGH motif; other site 398578011607 nucleotide binding site [chemical binding]; other site 398578011608 active site 398578011609 KMSKS motif; other site 398578011610 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 398578011611 S-adenosylmethionine binding site [chemical binding]; other site 398578011612 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578011613 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578011614 metal binding site [ion binding]; metal-binding site 398578011615 active site 398578011616 I-site; other site 398578011617 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 398578011618 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578011619 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578011620 metal binding site [ion binding]; metal-binding site 398578011621 active site 398578011622 I-site; other site 398578011623 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 398578011624 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 398578011625 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 398578011626 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 398578011627 motif 1; other site 398578011628 active site 398578011629 motif 2; other site 398578011630 motif 3; other site 398578011631 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 398578011632 DHHA1 domain; Region: DHHA1; pfam02272 398578011633 metabolite-proton symporter; Region: 2A0106; TIGR00883 398578011634 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 398578011635 putative substrate translocation pore; other site 398578011636 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 398578011637 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 398578011638 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 398578011639 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 398578011640 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 398578011641 D-pathway; other site 398578011642 Putative ubiquinol binding site [chemical binding]; other site 398578011643 Low-spin heme (heme b) binding site [chemical binding]; other site 398578011644 Putative water exit pathway; other site 398578011645 Binuclear center (heme o3/CuB) [ion binding]; other site 398578011646 K-pathway; other site 398578011647 Putative proton exit pathway; other site 398578011648 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 398578011649 Subunit I/III interface [polypeptide binding]; other site 398578011650 Subunit III/IV interface [polypeptide binding]; other site 398578011651 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 398578011652 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 398578011653 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398578011654 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 398578011655 dimer interface [polypeptide binding]; other site 398578011656 phosphorylation site [posttranslational modification] 398578011657 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 398578011658 ATP binding site [chemical binding]; other site 398578011659 Mg2+ binding site [ion binding]; other site 398578011660 G-X-G motif; other site 398578011661 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 398578011662 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 398578011663 active site 398578011664 phosphorylation site [posttranslational modification] 398578011665 intermolecular recognition site; other site 398578011666 dimerization interface [polypeptide binding]; other site 398578011667 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398578011668 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 398578011669 UbiA prenyltransferase family; Region: UbiA; pfam01040 398578011670 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 398578011671 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 398578011672 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 398578011673 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 398578011674 S-adenosylmethionine binding site [chemical binding]; other site 398578011675 H-NS histone family; Region: Histone_HNS; pfam00816 398578011676 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 398578011677 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 398578011678 Domain of unknown function (DUF333); Region: DUF333; pfam03891 398578011679 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 398578011680 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 398578011681 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 398578011682 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 398578011683 Pentraxins are plasma proteins characterized by their pentameric discoid assembly and their Ca2+ dependent ligand binding, such as Serum amyloid P component (SAP) and C-reactive Protein (CRP), which are cytokine-inducible acute-phase proteins implicated...; Region: PTX; cl00102 398578011684 Putative phage tail protein; Region: Phage-tail_3; pfam13550 398578011685 NlpC/P60 family; Region: NLPC_P60; cl17555 398578011686 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 398578011687 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 398578011688 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 398578011689 Phage-related minor tail protein [Function unknown]; Region: COG5281 398578011690 tape measure domain; Region: tape_meas_nterm; TIGR02675 398578011691 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 398578011692 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 398578011693 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 398578011694 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 398578011695 Phage tail protein; Region: Phage_tail_3; pfam08813 398578011696 Bacteriophage related domain of unknown function; Region: DUF4128; pfam13554 398578011697 HNH endonuclease; Region: HNH_3; pfam13392 398578011698 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4834 398578011699 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 398578011700 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 398578011701 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 398578011702 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 398578011703 Phage terminase large subunit; Region: Terminase_3; cl12054 398578011704 Terminase-like family; Region: Terminase_6; pfam03237 398578011705 Terminase small subunit; Region: Terminase_2; pfam03592 398578011706 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 398578011707 Protein of unknown function (DUF3461); Region: DUF3461; cl10125 398578011708 replicative DNA helicase; Region: DnaB; TIGR00665 398578011709 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 398578011710 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 398578011711 Walker A motif; other site 398578011712 ATP binding site [chemical binding]; other site 398578011713 Walker B motif; other site 398578011714 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 398578011715 sequence-specific DNA binding site [nucleotide binding]; other site 398578011716 salt bridge; other site 398578011717 Predicted transcriptional regulator [Transcription]; Region: COG2932 398578011718 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 398578011719 Catalytic site [active] 398578011720 ERF superfamily; Region: ERF; pfam04404 398578011721 H-NS histone family; Region: Histone_HNS; pfam00816 398578011722 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 398578011723 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 398578011724 active site 398578011725 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 398578011726 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 398578011727 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 398578011728 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 398578011729 active site 398578011730 DNA binding site [nucleotide binding] 398578011731 Int/Topo IB signature motif; other site 398578011732 integrase; Provisional; Region: PRK09692 398578011733 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 398578011734 active site 398578011735 Int/Topo IB signature motif; other site 398578011736 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 398578011737 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 398578011738 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 398578011739 Magnesium ion binding site [ion binding]; other site 398578011740 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 398578011741 ParB-like nuclease domain; Region: ParBc; pfam02195 398578011742 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 398578011743 Domain of unknown function (DUF1845); Region: DUF1845; pfam08900 398578011744 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 398578011745 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 398578011746 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 398578011747 ssDNA binding site [nucleotide binding]; other site 398578011748 dimer interface [polypeptide binding]; other site 398578011749 tetramer (dimer of dimers) interface [polypeptide binding]; other site 398578011750 DNA topoisomerase III; Provisional; Region: PRK07726 398578011751 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 398578011752 active site 398578011753 putative interdomain interaction site [polypeptide binding]; other site 398578011754 putative metal-binding site [ion binding]; other site 398578011755 putative nucleotide binding site [chemical binding]; other site 398578011756 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 398578011757 domain I; other site 398578011758 DNA binding groove [nucleotide binding] 398578011759 phosphate binding site [ion binding]; other site 398578011760 domain II; other site 398578011761 domain III; other site 398578011762 nucleotide binding site [chemical binding]; other site 398578011763 catalytic site [active] 398578011764 domain IV; other site 398578011765 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 398578011766 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 398578011767 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 398578011768 Domain of unknown function (DUF932); Region: DUF932; pfam06067 398578011769 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 398578011770 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 398578011771 nucleotide binding region [chemical binding]; other site 398578011772 ATP-binding site [chemical binding]; other site 398578011773 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 398578011774 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 398578011775 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578011776 ABC transporter signature motif; other site 398578011777 Walker B; other site 398578011778 D-loop; other site 398578011779 H-loop/switch region; other site 398578011780 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 398578011781 putative active site [active] 398578011782 putative metal-binding site [ion binding]; other site 398578011783 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 398578011784 Part of AAA domain; Region: AAA_19; pfam13245 398578011785 Family description; Region: UvrD_C_2; pfam13538 398578011786 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 398578011787 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 398578011788 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 398578011789 catalytic residue [active] 398578011790 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 398578011791 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 398578011792 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 398578011793 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 398578011794 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 398578011795 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 398578011796 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 398578011797 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 398578011798 Protein of unknown function (DUF3487); Region: DUF3487; pfam11990 398578011799 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 398578011800 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 398578011801 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 398578011802 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 398578011803 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 398578011804 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 398578011805 ParA/MinD ATPase like; Region: ParA; pfam10609 398578011806 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 398578011807 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 398578011808 catalytic residues [active] 398578011809 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 398578011810 MPN+ (JAMM) motif; other site 398578011811 Zinc-binding site [ion binding]; other site 398578011812 Protein of unknown function (DUF1525); Region: DUF1525; pfam07511 398578011813 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 398578011814 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 398578011815 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 398578011816 Protein of unknown function (DUF3742); Region: DUF3742; pfam12553 398578011817 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 398578011818 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 398578011819 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 398578011820 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 398578011821 Putative helicase; Region: TraI_2; pfam07514 398578011822 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 398578011823 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 398578011824 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 398578011825 RNA binding site [nucleotide binding]; other site 398578011826 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 398578011827 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 398578011828 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 398578011829 Walker A motif; other site 398578011830 ATP binding site [chemical binding]; other site 398578011831 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 398578011832 AAA domain; Region: AAA_30; pfam13604 398578011833 AAA domain; Region: AAA_12; pfam13087 398578011834 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 398578011835 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398578011836 active site 398578011837 ATP binding site [chemical binding]; other site 398578011838 substrate binding site [chemical binding]; other site 398578011839 activation loop (A-loop); other site 398578011840 Protein phosphatase 2C; Region: PP2C_2; pfam13672 398578011841 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl11817 398578011842 Domain of unknown function (DUF1887); Region: DUF1887; pfam09002 398578011843 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 398578011844 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 398578011845 metal ion-dependent adhesion site (MIDAS); other site 398578011846 Restriction endonuclease [Defense mechanisms]; Region: COG3587 398578011847 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 398578011848 ATP binding site [chemical binding]; other site 398578011849 putative Mg++ binding site [ion binding]; other site 398578011850 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 398578011851 DNA methylase; Region: N6_N4_Mtase; cl17433 398578011852 DNA methylase; Region: N6_N4_Mtase; cl17433 398578011853 DNA methylase; Region: N6_N4_Mtase; pfam01555 398578011854 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 398578011855 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_c; cd10311 398578011856 putative active site [active] 398578011857 catalytic site [active] 398578011858 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 398578011859 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 398578011860 ATP binding site [chemical binding]; other site 398578011861 putative Mg++ binding site [ion binding]; other site 398578011862 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 398578011863 nucleotide binding region [chemical binding]; other site 398578011864 ATP-binding site [chemical binding]; other site 398578011865 Predicted transcriptional regulator [Transcription]; Region: COG2378 398578011866 WYL domain; Region: WYL; pfam13280 398578011867 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578011868 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578011869 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 398578011870 dimerization interface [polypeptide binding]; other site 398578011871 substrate binding pocket [chemical binding]; other site 398578011872 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398578011873 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 398578011874 sequence-specific DNA binding site [nucleotide binding]; other site 398578011875 salt bridge; other site 398578011876 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578011877 LysR substrate binding domain; Region: LysR_substrate; pfam03466 398578011878 dimerization interface [polypeptide binding]; other site 398578011879 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398578011880 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 398578011881 Heavy-metal resistance; Region: Metal_resist; pfam13801 398578011882 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 398578011883 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 398578011884 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 398578011885 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 398578011886 tetramer interface [polypeptide binding]; other site 398578011887 active site 398578011888 Mg2+/Mn2+ binding site [ion binding]; other site 398578011889 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 398578011890 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 398578011891 azurin; Region: azurin; TIGR02695 398578011892 Domain of unknown function DUF21; Region: DUF21; pfam01595 398578011893 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 398578011894 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 398578011895 Transporter associated domain; Region: CorC_HlyC; smart01091 398578011896 Isochorismatase family; Region: Isochorismatase; pfam00857 398578011897 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 398578011898 catalytic triad [active] 398578011899 conserved cis-peptide bond; other site 398578011900 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 398578011901 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 398578011902 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 398578011903 putative FMN binding site [chemical binding]; other site 398578011904 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 398578011905 metal binding site 2 [ion binding]; metal-binding site 398578011906 putative DNA binding helix; other site 398578011907 metal binding site 1 [ion binding]; metal-binding site 398578011908 dimer interface [polypeptide binding]; other site 398578011909 structural Zn2+ binding site [ion binding]; other site 398578011910 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 398578011911 Cytochrome c [Energy production and conversion]; Region: COG3258 398578011912 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 398578011913 Cytochrome c; Region: Cytochrom_C; cl11414 398578011914 Cytochrome c; Region: Cytochrom_C; cl11414 398578011915 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398578011916 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 398578011917 dimer interface [polypeptide binding]; other site 398578011918 phosphorylation site [posttranslational modification] 398578011919 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 398578011920 ATP binding site [chemical binding]; other site 398578011921 Mg2+ binding site [ion binding]; other site 398578011922 G-X-G motif; other site 398578011923 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398578011924 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 398578011925 active site 398578011926 phosphorylation site [posttranslational modification] 398578011927 intermolecular recognition site; other site 398578011928 dimerization interface [polypeptide binding]; other site 398578011929 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 398578011930 DNA binding site [nucleotide binding] 398578011931 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 398578011932 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398578011933 catalytic residues [active] 398578011934 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 398578011935 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 398578011936 dimerization domain [polypeptide binding]; other site 398578011937 dimer interface [polypeptide binding]; other site 398578011938 catalytic residues [active] 398578011939 DsrE/DsrF-like family; Region: DrsE; cl00672 398578011940 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 398578011941 4Fe-4S binding domain; Region: Fer4; pfam00037 398578011942 tetrathionate reductase subunit C; Provisional; Region: PRK14992 398578011943 tetrathionate reductase subunit A; Provisional; Region: PRK14991 398578011944 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 398578011945 molybdopterin cofactor binding site; other site 398578011946 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 398578011947 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 398578011948 putative molybdopterin cofactor binding site; other site 398578011949 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398578011950 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 398578011951 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398578011952 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578011953 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 398578011954 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398578011955 putative substrate translocation pore; other site 398578011956 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578011957 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578011958 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 398578011959 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 398578011960 probable active site [active] 398578011961 PIN domain; Region: PIN_3; cl17397 398578011962 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398578011963 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578011964 DNA-binding site [nucleotide binding]; DNA binding site 398578011965 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 398578011966 short chain dehydrogenase; Provisional; Region: PRK12829 398578011967 classical (c) SDRs; Region: SDR_c; cd05233 398578011968 NAD(P) binding site [chemical binding]; other site 398578011969 active site 398578011970 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 398578011971 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 398578011972 D-galactonate transporter; Region: 2A0114; TIGR00893 398578011973 putative substrate translocation pore; other site 398578011974 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 398578011975 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 398578011976 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 398578011977 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 398578011978 homodimer interaction site [polypeptide binding]; other site 398578011979 cofactor binding site; other site 398578011980 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 398578011981 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 398578011982 putative active site [active] 398578011983 putative PHP Thumb interface [polypeptide binding]; other site 398578011984 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 398578011985 generic binding surface II; other site 398578011986 generic binding surface I; other site 398578011987 Y-family of DNA polymerases; Region: PolY; cl12025 398578011988 DNA binding site [nucleotide binding] 398578011989 Uncharacterized conserved protein [Function unknown]; Region: COG4544 398578011990 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398578011991 Zn2+ binding site [ion binding]; other site 398578011992 Mg2+ binding site [ion binding]; other site 398578011993 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 398578011994 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 398578011995 PAS domain; Region: PAS_9; pfam13426 398578011996 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 398578011997 putative active site [active] 398578011998 heme pocket [chemical binding]; other site 398578011999 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 398578012000 DNA binding residues [nucleotide binding] 398578012001 dimerization interface [polypeptide binding]; other site 398578012002 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 398578012003 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 398578012004 tetramer interface [polypeptide binding]; other site 398578012005 heme binding pocket [chemical binding]; other site 398578012006 NADPH binding site [chemical binding]; other site 398578012007 SnoaL-like domain; Region: SnoaL_2; pfam12680 398578012008 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 398578012009 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 398578012010 active site 398578012011 FMN binding site [chemical binding]; other site 398578012012 2,4-decadienoyl-CoA binding site; other site 398578012013 catalytic residue [active] 398578012014 4Fe-4S cluster binding site [ion binding]; other site 398578012015 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 398578012016 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398578012017 Predicted transcriptional regulators [Transcription]; Region: COG1695 398578012018 Transcriptional regulator PadR-like family; Region: PadR; cl17335 398578012019 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 398578012020 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 398578012021 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 398578012022 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 398578012023 active site 398578012024 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578012025 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578012026 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 398578012027 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 398578012028 ligand binding site [chemical binding]; other site 398578012029 NAD binding site [chemical binding]; other site 398578012030 dimerization interface [polypeptide binding]; other site 398578012031 catalytic site [active] 398578012032 hypothetical protein; Validated; Region: PRK06201 398578012033 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 398578012034 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578012035 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 398578012036 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 398578012037 active site 398578012038 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578012039 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398578012040 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 398578012041 Bacterial transcriptional regulator; Region: IclR; pfam01614 398578012042 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 398578012043 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 398578012044 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398578012045 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578012046 transcriptional activator TtdR; Provisional; Region: PRK09801 398578012047 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 398578012048 dimerization interface [polypeptide binding]; other site 398578012049 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 398578012050 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 398578012051 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 398578012052 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578012053 DNA-binding site [nucleotide binding]; DNA binding site 398578012054 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 398578012055 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578012056 homodimer interface [polypeptide binding]; other site 398578012057 catalytic residue [active] 398578012058 N-acetyltransferase; Region: Acetyltransf_2; pfam00797 398578012059 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398578012060 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398578012061 DNA binding site [nucleotide binding] 398578012062 domain linker motif; other site 398578012063 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 398578012064 putative dimerization interface [polypeptide binding]; other site 398578012065 putative ligand binding site [chemical binding]; other site 398578012066 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578012067 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 398578012068 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 398578012069 active site pocket [active] 398578012070 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 398578012071 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398578012072 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 398578012073 active site 398578012074 phosphorylation site [posttranslational modification] 398578012075 intermolecular recognition site; other site 398578012076 dimerization interface [polypeptide binding]; other site 398578012077 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 398578012078 Walker A motif; other site 398578012079 ATP binding site [chemical binding]; other site 398578012080 Walker B motif; other site 398578012081 arginine finger; other site 398578012082 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398578012083 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 398578012084 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 398578012085 dimer interface [polypeptide binding]; other site 398578012086 phosphorylation site [posttranslational modification] 398578012087 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 398578012088 ATP binding site [chemical binding]; other site 398578012089 Mg2+ binding site [ion binding]; other site 398578012090 G-X-G motif; other site 398578012091 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 398578012092 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398578012093 CHASE3 domain; Region: CHASE3; pfam05227 398578012094 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 398578012095 dimerization interface [polypeptide binding]; other site 398578012096 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398578012097 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578012098 dimer interface [polypeptide binding]; other site 398578012099 putative CheW interface [polypeptide binding]; other site 398578012100 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 398578012101 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 398578012102 DNA binding residues [nucleotide binding] 398578012103 B12 binding domain; Region: B12-binding_2; pfam02607 398578012104 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 398578012105 B12 binding site [chemical binding]; other site 398578012106 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 398578012107 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398578012108 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 398578012109 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 398578012110 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 398578012111 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 398578012112 DNA binding residues [nucleotide binding] 398578012113 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 398578012114 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 398578012115 potential catalytic triad [active] 398578012116 conserved cys residue [active] 398578012117 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398578012118 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398578012119 NAD(P) binding site [chemical binding]; other site 398578012120 active site 398578012121 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578012122 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578012123 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 398578012124 dimerization interface [polypeptide binding]; other site 398578012125 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 398578012126 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 398578012127 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 398578012128 active site 398578012129 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 398578012130 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 398578012131 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 398578012132 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 398578012133 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 398578012134 zinc binding site [ion binding]; other site 398578012135 putative ligand binding site [chemical binding]; other site 398578012136 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398578012137 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; cd06574 398578012138 TM-ABC transporter signature motif; other site 398578012139 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 398578012140 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578012141 Walker A/P-loop; other site 398578012142 ATP binding site [chemical binding]; other site 398578012143 Q-loop/lid; other site 398578012144 ABC transporter signature motif; other site 398578012145 Walker B; other site 398578012146 D-loop; other site 398578012147 H-loop/switch region; other site 398578012148 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 398578012149 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 398578012150 Helix-turn-helix domain; Region: HTH_18; pfam12833 398578012151 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578012152 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398578012153 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 398578012154 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578012155 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578012156 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 398578012157 putative effector binding pocket; other site 398578012158 dimerization interface [polypeptide binding]; other site 398578012159 lysine transporter; Provisional; Region: PRK10836 398578012160 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398578012161 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 398578012162 Helix-turn-helix domain; Region: HTH_18; pfam12833 398578012163 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398578012164 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 398578012165 putative DNA binding site [nucleotide binding]; other site 398578012166 putative Zn2+ binding site [ion binding]; other site 398578012167 AsnC family; Region: AsnC_trans_reg; pfam01037 398578012168 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 398578012169 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398578012170 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 398578012171 dimer interface [polypeptide binding]; other site 398578012172 phosphorylation site [posttranslational modification] 398578012173 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 398578012174 ATP binding site [chemical binding]; other site 398578012175 Mg2+ binding site [ion binding]; other site 398578012176 G-X-G motif; other site 398578012177 Protein of unknown function, DUF606; Region: DUF606; pfam04657 398578012178 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578012179 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578012180 The C-terminal substrate binding domain of LysR-type transcriptional regulator ToxR regulates the expression of the toxoflavin biosynthesis genes; contains the type 2 periplasmic bindinig fold; Region: PBP2_ToxR; cd08465 398578012181 putative substrate binding pocket [chemical binding]; other site 398578012182 putative dimerization interface [polypeptide binding]; other site 398578012183 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 398578012184 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578012185 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 398578012186 acyl-activating enzyme (AAE) consensus motif; other site 398578012187 putative AMP binding site [chemical binding]; other site 398578012188 putative active site [active] 398578012189 putative CoA binding site [chemical binding]; other site 398578012190 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 398578012191 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 398578012192 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 398578012193 lipoyl attachment site [posttranslational modification]; other site 398578012194 glycine dehydrogenase; Provisional; Region: PRK05367 398578012195 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 398578012196 tetramer interface [polypeptide binding]; other site 398578012197 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578012198 catalytic residue [active] 398578012199 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 398578012200 tetramer interface [polypeptide binding]; other site 398578012201 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578012202 catalytic residue [active] 398578012203 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 398578012204 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398578012205 putative active site [active] 398578012206 heme pocket [chemical binding]; other site 398578012207 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 398578012208 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 398578012209 putative active site [active] 398578012210 heme pocket [chemical binding]; other site 398578012211 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 398578012212 dimer interface [polypeptide binding]; other site 398578012213 phosphorylation site [posttranslational modification] 398578012214 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 398578012215 ATP binding site [chemical binding]; other site 398578012216 Mg2+ binding site [ion binding]; other site 398578012217 G-X-G motif; other site 398578012218 Response regulator receiver domain; Region: Response_reg; pfam00072 398578012219 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 398578012220 active site 398578012221 phosphorylation site [posttranslational modification] 398578012222 intermolecular recognition site; other site 398578012223 dimerization interface [polypeptide binding]; other site 398578012224 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 398578012225 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 398578012226 active site 398578012227 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398578012228 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 398578012229 dimerization interface [polypeptide binding]; other site 398578012230 ligand binding site [chemical binding]; other site 398578012231 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398578012232 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 398578012233 TM-ABC transporter signature motif; other site 398578012234 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 398578012235 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 398578012236 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 398578012237 TM-ABC transporter signature motif; other site 398578012238 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 398578012239 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 398578012240 Walker A/P-loop; other site 398578012241 ATP binding site [chemical binding]; other site 398578012242 Q-loop/lid; other site 398578012243 ABC transporter signature motif; other site 398578012244 Walker B; other site 398578012245 D-loop; other site 398578012246 H-loop/switch region; other site 398578012247 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398578012248 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 398578012249 Walker A/P-loop; other site 398578012250 ATP binding site [chemical binding]; other site 398578012251 Q-loop/lid; other site 398578012252 ABC transporter signature motif; other site 398578012253 Walker B; other site 398578012254 D-loop; other site 398578012255 H-loop/switch region; other site 398578012256 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 398578012257 dimer interface [polypeptide binding]; other site 398578012258 pyridoxamine kinase; Validated; Region: PRK05756 398578012259 pyridoxal binding site [chemical binding]; other site 398578012260 ATP binding site [chemical binding]; other site 398578012261 short chain dehydrogenase; Provisional; Region: PRK07023 398578012262 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398578012263 NAD(P) binding site [chemical binding]; other site 398578012264 active site 398578012265 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 398578012266 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 398578012267 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 398578012268 active site 398578012269 DNA binding site [nucleotide binding] 398578012270 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 398578012271 DNA binding site [nucleotide binding] 398578012272 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 398578012273 nucleotide binding site [chemical binding]; other site 398578012274 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 398578012275 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 398578012276 putative homodimer interface [polypeptide binding]; other site 398578012277 putative DNA binding site [nucleotide binding]; other site 398578012278 hydroperoxidase II; Provisional; Region: katE; PRK11249 398578012279 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 398578012280 tetramer interface [polypeptide binding]; other site 398578012281 heme binding pocket [chemical binding]; other site 398578012282 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 398578012283 domain interactions; other site 398578012284 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 398578012285 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 398578012286 active site 398578012287 DNA binding site [nucleotide binding] 398578012288 Int/Topo IB signature motif; other site 398578012289 catalytic residues [active] 398578012290 Response regulator receiver domain; Region: Response_reg; pfam00072 398578012291 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 398578012292 active site 398578012293 phosphorylation site [posttranslational modification] 398578012294 intermolecular recognition site; other site 398578012295 dimerization interface [polypeptide binding]; other site 398578012296 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 398578012297 Walker A motif; other site 398578012298 ATP binding site [chemical binding]; other site 398578012299 Walker B motif; other site 398578012300 arginine finger; other site 398578012301 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398578012302 Predicted membrane protein [Function unknown]; Region: COG2261 398578012303 histidine kinase; Provisional; Region: PRK13557 398578012304 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 398578012305 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 398578012306 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 398578012307 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 398578012308 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398578012309 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 398578012310 dimer interface [polypeptide binding]; other site 398578012311 phosphorylation site [posttranslational modification] 398578012312 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 398578012313 ATP binding site [chemical binding]; other site 398578012314 Mg2+ binding site [ion binding]; other site 398578012315 G-X-G motif; other site 398578012316 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398578012317 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 398578012318 active site 398578012319 phosphorylation site [posttranslational modification] 398578012320 intermolecular recognition site; other site 398578012321 dimerization interface [polypeptide binding]; other site 398578012322 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398578012323 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 398578012324 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 398578012325 dimer interface [polypeptide binding]; other site 398578012326 phosphorylation site [posttranslational modification] 398578012327 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 398578012328 ATP binding site [chemical binding]; other site 398578012329 Mg2+ binding site [ion binding]; other site 398578012330 G-X-G motif; other site 398578012331 Response regulator receiver domain; Region: Response_reg; pfam00072 398578012332 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 398578012333 active site 398578012334 phosphorylation site [posttranslational modification] 398578012335 intermolecular recognition site; other site 398578012336 dimerization interface [polypeptide binding]; other site 398578012337 allantoate amidohydrolase; Reviewed; Region: PRK12890 398578012338 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 398578012339 active site 398578012340 metal binding site [ion binding]; metal-binding site 398578012341 dimer interface [polypeptide binding]; other site 398578012342 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578012343 Hemerythrin; Region: Hemerythrin; cd12107 398578012344 Fe binding site [ion binding]; other site 398578012345 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 398578012346 Ligand Binding Site [chemical binding]; other site 398578012347 Biofilm formation and stress response factor; Region: BsmA; pfam10014 398578012348 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 398578012349 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398578012350 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 398578012351 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398578012352 Bacterial transcriptional regulator; Region: IclR; pfam01614 398578012353 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578012354 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578012355 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 398578012356 putative dimerization interface [polypeptide binding]; other site 398578012357 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578012358 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 398578012359 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 398578012360 dimer interface [polypeptide binding]; other site 398578012361 active site 398578012362 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398578012363 substrate binding site [chemical binding]; other site 398578012364 catalytic residue [active] 398578012365 Uncharacterized conserved protein [Function unknown]; Region: COG3791 398578012366 Low molecular weight phosphatase family; Region: LMWPc; cl00105 398578012367 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 398578012368 active site 398578012369 Catalytic domain of Protein Kinases; Region: PKc; cd00180 398578012370 active site 398578012371 ATP binding site [chemical binding]; other site 398578012372 substrate binding site [chemical binding]; other site 398578012373 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 398578012374 activation loop (A-loop); other site 398578012375 cyclase homology domain; Region: CHD; cd07302 398578012376 dimer interface [polypeptide binding]; other site 398578012377 nucleotidyl binding site; other site 398578012378 metal binding site [ion binding]; metal-binding site 398578012379 AAA ATPase domain; Region: AAA_16; pfam13191 398578012380 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 398578012381 binding surface 398578012382 TPR motif; other site 398578012383 ribosomal natural product, two-chain TOMM family; Region: RNP_Burkhold; TIGR03795 398578012384 ribosomal natural product, two-chain TOMM family; Region: RNP_Burkhold; TIGR03795 398578012385 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 398578012386 bacteriocin biosynthesis cyclodehydratase domain; Region: cyclo_dehyd_2; TIGR03882 398578012387 YcaO-like family; Region: YcaO; pfam02624 398578012388 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 398578012389 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 398578012390 phosphopeptide binding site; other site 398578012391 Uncharacterized conserved protein [Function unknown]; Region: COG3791 398578012392 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 398578012393 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 398578012394 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398578012395 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 398578012396 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 398578012397 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578012398 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578012399 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 398578012400 putative effector binding pocket; other site 398578012401 dimerization interface [polypeptide binding]; other site 398578012402 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398578012403 FAD binding domain; Region: FAD_binding_3; pfam01494 398578012404 arsenical pump membrane protein; Provisional; Region: PRK15445 398578012405 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 398578012406 transmembrane helices; other site 398578012407 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 398578012408 Low molecular weight phosphatase family; Region: LMWPc; cd00115 398578012409 active site 398578012410 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 398578012411 dimerization interface [polypeptide binding]; other site 398578012412 putative DNA binding site [nucleotide binding]; other site 398578012413 putative Zn2+ binding site [ion binding]; other site 398578012414 short chain dehydrogenase; Validated; Region: PRK08264 398578012415 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398578012416 NAD(P) binding site [chemical binding]; other site 398578012417 active site 398578012418 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 398578012419 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 398578012420 putative NAD(P) binding site [chemical binding]; other site 398578012421 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578012422 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578012423 hypothetical protein; Provisional; Region: PRK07538 398578012424 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398578012425 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 398578012426 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398578012427 substrate binding pocket [chemical binding]; other site 398578012428 membrane-bound complex binding site; other site 398578012429 hinge residues; other site 398578012430 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 398578012431 dimer interface [polypeptide binding]; other site 398578012432 conserved gate region; other site 398578012433 putative PBP binding loops; other site 398578012434 ABC-ATPase subunit interface; other site 398578012435 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 398578012436 dimer interface [polypeptide binding]; other site 398578012437 conserved gate region; other site 398578012438 putative PBP binding loops; other site 398578012439 ABC-ATPase subunit interface; other site 398578012440 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578012441 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578012442 metal binding site [ion binding]; metal-binding site 398578012443 active site 398578012444 I-site; other site 398578012445 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 398578012446 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 398578012447 putative active site [active] 398578012448 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 398578012449 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 398578012450 Sensors of blue-light using FAD; Region: BLUF; pfam04940 398578012451 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398578012452 GAF domain; Region: GAF; pfam01590 398578012453 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578012454 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578012455 metal binding site [ion binding]; metal-binding site 398578012456 active site 398578012457 I-site; other site 398578012458 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 398578012459 Predicted membrane protein [Function unknown]; Region: COG1971 398578012460 Domain of unknown function DUF; Region: DUF204; pfam02659 398578012461 Domain of unknown function DUF; Region: DUF204; pfam02659 398578012462 PRC-barrel domain; Region: PRC; pfam05239 398578012463 Cytochrome c; Region: Cytochrom_C; pfam00034 398578012464 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578012465 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 398578012466 dimerization interface [polypeptide binding]; other site 398578012467 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398578012468 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 398578012469 putative substrate translocation pore; other site 398578012470 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398578012471 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 398578012472 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 398578012473 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 398578012474 NAD(P) binding site [chemical binding]; other site 398578012475 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578012476 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578012477 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 398578012478 dimerization interface [polypeptide binding]; other site 398578012479 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398578012480 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 398578012481 active site 398578012482 phosphorylation site [posttranslational modification] 398578012483 intermolecular recognition site; other site 398578012484 dimerization interface [polypeptide binding]; other site 398578012485 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398578012486 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 398578012487 putative active site [active] 398578012488 heme pocket [chemical binding]; other site 398578012489 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 398578012490 dimer interface [polypeptide binding]; other site 398578012491 phosphorylation site [posttranslational modification] 398578012492 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 398578012493 ATP binding site [chemical binding]; other site 398578012494 Mg2+ binding site [ion binding]; other site 398578012495 G-X-G motif; other site 398578012496 Response regulator receiver domain; Region: Response_reg; pfam00072 398578012497 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 398578012498 active site 398578012499 phosphorylation site [posttranslational modification] 398578012500 intermolecular recognition site; other site 398578012501 dimerization interface [polypeptide binding]; other site 398578012502 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 398578012503 dimer interface [polypeptide binding]; other site 398578012504 phosphorylation site [posttranslational modification] 398578012505 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 398578012506 ATP binding site [chemical binding]; other site 398578012507 Mg2+ binding site [ion binding]; other site 398578012508 G-X-G motif; other site 398578012509 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 398578012510 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 398578012511 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 398578012512 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 398578012513 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 398578012514 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 398578012515 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 398578012516 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 398578012517 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 398578012518 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 398578012519 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 398578012520 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398578012521 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578012522 dimer interface [polypeptide binding]; other site 398578012523 putative CheW interface [polypeptide binding]; other site 398578012524 NIPSNAP; Region: NIPSNAP; pfam07978 398578012525 NMT1/THI5 like; Region: NMT1; pfam09084 398578012526 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 398578012527 substrate binding pocket [chemical binding]; other site 398578012528 membrane-bound complex binding site; other site 398578012529 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 398578012530 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 398578012531 Walker A/P-loop; other site 398578012532 ATP binding site [chemical binding]; other site 398578012533 Q-loop/lid; other site 398578012534 ABC transporter signature motif; other site 398578012535 Walker B; other site 398578012536 D-loop; other site 398578012537 H-loop/switch region; other site 398578012538 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 398578012539 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 398578012540 active site 398578012541 non-prolyl cis peptide bond; other site 398578012542 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398578012543 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 398578012544 substrate binding pocket [chemical binding]; other site 398578012545 membrane-bound complex binding site; other site 398578012546 hinge residues; other site 398578012547 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 398578012548 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 398578012549 oligomer interface [polypeptide binding]; other site 398578012550 metal binding site [ion binding]; metal-binding site 398578012551 metal binding site [ion binding]; metal-binding site 398578012552 putative Cl binding site [ion binding]; other site 398578012553 basic sphincter; other site 398578012554 hydrophobic gate; other site 398578012555 periplasmic entrance; other site 398578012556 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 398578012557 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 398578012558 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 398578012559 Walker A motif; other site 398578012560 ATP binding site [chemical binding]; other site 398578012561 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 398578012562 AAA domain; Region: AAA_12; pfam13087 398578012563 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 398578012564 putative active site [active] 398578012565 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 398578012566 putative homodimer interface [polypeptide binding]; other site 398578012567 putative homotetramer interface [polypeptide binding]; other site 398578012568 putative metal binding site [ion binding]; other site 398578012569 putative homodimer-homodimer interface [polypeptide binding]; other site 398578012570 putative allosteric switch controlling residues; other site 398578012571 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 398578012572 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 398578012573 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 398578012574 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 398578012575 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 398578012576 interface (dimer of trimers) [polypeptide binding]; other site 398578012577 Substrate-binding/catalytic site; other site 398578012578 Zn-binding sites [ion binding]; other site 398578012579 hypothetical protein; Validated; Region: PRK06201 398578012580 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 398578012581 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578012582 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 398578012583 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398578012584 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578012585 DNA-binding site [nucleotide binding]; DNA binding site 398578012586 FCD domain; Region: FCD; pfam07729 398578012587 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 398578012588 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 398578012589 putative substrate translocation pore; other site 398578012590 Dehydroquinase class II; Region: DHquinase_II; pfam01220 398578012591 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 398578012592 trimer interface [polypeptide binding]; other site 398578012593 active site 398578012594 dimer interface [polypeptide binding]; other site 398578012595 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 398578012596 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 398578012597 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 398578012598 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398578012599 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 398578012600 trimer interface [polypeptide binding]; other site 398578012601 eyelet of channel; other site 398578012602 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 398578012603 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 398578012604 shikimate binding site; other site 398578012605 NAD(P) binding site [chemical binding]; other site 398578012606 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 398578012607 metabolite-proton symporter; Region: 2A0106; TIGR00883 398578012608 putative substrate translocation pore; other site 398578012609 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 398578012610 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398578012611 Bacterial transcriptional regulator; Region: IclR; pfam01614 398578012612 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 398578012613 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 398578012614 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398578012615 active site 398578012616 catalytic tetrad [active] 398578012617 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 398578012618 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 398578012619 dimer interface [polypeptide binding]; other site 398578012620 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 398578012621 active site 398578012622 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 398578012623 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 398578012624 Subunit B of the Class III extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of protocatechuate; Region: PCA_45_Dioxygenase_B; cd07364 398578012625 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 398578012626 active site 398578012627 Fe(II) binding site [ion binding]; other site 398578012628 dimer interface [polypeptide binding]; other site 398578012629 tetramer interface [polypeptide binding]; other site 398578012630 The A subunit of Protocatechuate 4,5-dioxygenase (LigAB) is the smaller, non-catalytic subunit; Region: PCA_45_Doxase_A; cd07924 398578012631 tetramer interface [polypeptide binding]; other site 398578012632 dimer interface [polypeptide binding]; other site 398578012633 active site 398578012634 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 398578012635 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 398578012636 active site 398578012637 hypothetical protein; Provisional; Region: PRK09262 398578012638 Amidohydrolase; Region: Amidohydro_2; pfam04909 398578012639 benzoate transport; Region: 2A0115; TIGR00895 398578012640 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 398578012641 putative substrate translocation pore; other site 398578012642 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 398578012643 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 398578012644 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578012645 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 398578012646 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 398578012647 active site 398578012648 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 398578012649 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578012650 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 398578012651 dimerization interface [polypeptide binding]; other site 398578012652 substrate binding pocket [chemical binding]; other site 398578012653 short chain dehydrogenase; Provisional; Region: PRK07478 398578012654 classical (c) SDRs; Region: SDR_c; cd05233 398578012655 NAD(P) binding site [chemical binding]; other site 398578012656 active site 398578012657 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 398578012658 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 398578012659 metal binding site 2 [ion binding]; metal-binding site 398578012660 putative DNA binding helix; other site 398578012661 metal binding site 1 [ion binding]; metal-binding site 398578012662 dimer interface [polypeptide binding]; other site 398578012663 structural Zn2+ binding site [ion binding]; other site 398578012664 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 398578012665 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 398578012666 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 398578012667 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 398578012668 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398578012669 Walker A/P-loop; other site 398578012670 ATP binding site [chemical binding]; other site 398578012671 Q-loop/lid; other site 398578012672 ABC transporter signature motif; other site 398578012673 Walker B; other site 398578012674 D-loop; other site 398578012675 H-loop/switch region; other site 398578012676 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 398578012677 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 398578012678 N-terminal plug; other site 398578012679 ligand-binding site [chemical binding]; other site 398578012680 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578012681 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578012682 H-NS histone family; Region: Histone_HNS; pfam00816 398578012683 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 398578012684 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 398578012685 homotrimer interaction site [polypeptide binding]; other site 398578012686 putative active site [active] 398578012687 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 398578012688 active site 398578012689 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578012690 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 398578012691 acyl-activating enzyme (AAE) consensus motif; other site 398578012692 AMP binding site [chemical binding]; other site 398578012693 active site 398578012694 CoA binding site [chemical binding]; other site 398578012695 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398578012696 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578012697 active site 398578012698 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 398578012699 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 398578012700 substrate binding site [chemical binding]; other site 398578012701 oxyanion hole (OAH) forming residues; other site 398578012702 trimer interface [polypeptide binding]; other site 398578012703 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398578012704 classical (c) SDRs; Region: SDR_c; cd05233 398578012705 NAD(P) binding site [chemical binding]; other site 398578012706 active site 398578012707 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 398578012708 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398578012709 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 398578012710 active site 398578012711 FMN binding site [chemical binding]; other site 398578012712 substrate binding site [chemical binding]; other site 398578012713 homotetramer interface [polypeptide binding]; other site 398578012714 catalytic residue [active] 398578012715 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 398578012716 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 398578012717 RHS protein; Region: RHS; pfam03527 398578012718 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 398578012719 RHS Repeat; Region: RHS_repeat; pfam05593 398578012720 RHS Repeat; Region: RHS_repeat; pfam05593 398578012721 RHS Repeat; Region: RHS_repeat; cl11982 398578012722 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 398578012723 RHS protein; Region: RHS; pfam03527 398578012724 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 398578012725 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 398578012726 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 398578012727 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 398578012728 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 398578012729 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 398578012730 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398578012731 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 398578012732 Walker A/P-loop; other site 398578012733 ATP binding site [chemical binding]; other site 398578012734 Q-loop/lid; other site 398578012735 ABC transporter signature motif; other site 398578012736 Walker B; other site 398578012737 D-loop; other site 398578012738 H-loop/switch region; other site 398578012739 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398578012740 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 398578012741 Walker A/P-loop; other site 398578012742 ATP binding site [chemical binding]; other site 398578012743 Q-loop/lid; other site 398578012744 ABC transporter signature motif; other site 398578012745 Walker B; other site 398578012746 D-loop; other site 398578012747 H-loop/switch region; other site 398578012748 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 398578012749 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 398578012750 TM-ABC transporter signature motif; other site 398578012751 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 398578012752 TM-ABC transporter signature motif; other site 398578012753 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398578012754 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 398578012755 putative ligand binding site [chemical binding]; other site 398578012756 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 398578012757 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 398578012758 substrate binding pocket [chemical binding]; other site 398578012759 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398578012760 MarR family; Region: MarR; pfam01047 398578012761 Cache domain; Region: Cache_1; pfam02743 398578012762 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578012763 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578012764 metal binding site [ion binding]; metal-binding site 398578012765 active site 398578012766 I-site; other site 398578012767 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 398578012768 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 398578012769 ATP binding site [chemical binding]; other site 398578012770 Mg++ binding site [ion binding]; other site 398578012771 motif III; other site 398578012772 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 398578012773 nucleotide binding region [chemical binding]; other site 398578012774 ATP-binding site [chemical binding]; other site 398578012775 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 398578012776 putative RNA binding site [nucleotide binding]; other site 398578012777 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 398578012778 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 398578012779 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 398578012780 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 398578012781 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 398578012782 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398578012783 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 398578012784 NAD(P) binding site [chemical binding]; other site 398578012785 active site 398578012786 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 398578012787 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 398578012788 DNA binding residues [nucleotide binding] 398578012789 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 398578012790 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398578012791 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 398578012792 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 398578012793 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 398578012794 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578012795 DNA-binding site [nucleotide binding]; DNA binding site 398578012796 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 398578012797 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578012798 homodimer interface [polypeptide binding]; other site 398578012799 catalytic residue [active] 398578012800 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 398578012801 aspartate racemase; Region: asp_race; TIGR00035 398578012802 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578012803 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398578012804 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578012805 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398578012806 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 398578012807 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 398578012808 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398578012809 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 398578012810 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 398578012811 active site 398578012812 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 398578012813 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 398578012814 membrane-bound complex binding site; other site 398578012815 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 398578012816 dinuclear metal binding motif [ion binding]; other site 398578012817 Pretoxin HINT domain; Region: PT-HINT; pfam07591 398578012818 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 398578012819 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 398578012820 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 398578012821 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 398578012822 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 398578012823 RHS Repeat; Region: RHS_repeat; pfam05593 398578012824 RHS Repeat; Region: RHS_repeat; pfam05593 398578012825 RHS Repeat; Region: RHS_repeat; pfam05593 398578012826 RHS Repeat; Region: RHS_repeat; pfam05593 398578012827 RHS Repeat; Region: RHS_repeat; pfam05593 398578012828 RHS Repeat; Region: RHS_repeat; pfam05593 398578012829 RHS Repeat; Region: RHS_repeat; pfam05593 398578012830 RHS Repeat; Region: RHS_repeat; pfam05593 398578012831 RHS Repeat; Region: RHS_repeat; pfam05593 398578012832 RHS Repeat; Region: RHS_repeat; pfam05593 398578012833 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 398578012834 RHS Repeat; Region: RHS_repeat; pfam05593 398578012835 RHS Repeat; Region: RHS_repeat; pfam05593 398578012836 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 398578012837 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 398578012838 protein-splicing catalytic site; other site 398578012839 thioester formation/cholesterol transfer; other site 398578012840 Pretoxin HINT domain; Region: PT-HINT; pfam07591 398578012841 The BURPS668_1122 family of deaminases; Region: Toxin-deaminase; pfam14424 398578012842 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 398578012843 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 398578012844 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 398578012845 Uncharacterized conserved protein [Function unknown]; Region: COG1572 398578012846 CARDB; Region: CARDB; pfam07705 398578012847 CARDB; Region: CARDB; pfam07705 398578012848 CARDB; Region: CARDB; pfam07705 398578012849 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 398578012850 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 398578012851 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 398578012852 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 398578012853 sugar binding site [chemical binding]; other site 398578012854 CARDB; Region: CARDB; pfam07705 398578012855 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 398578012856 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 398578012857 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 398578012858 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 398578012859 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 398578012860 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 398578012861 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578012862 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578012863 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 398578012864 dimerization interface [polypeptide binding]; other site 398578012865 substrate binding pocket [chemical binding]; other site 398578012866 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 398578012867 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 398578012868 NAD(P) binding site [chemical binding]; other site 398578012869 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 398578012870 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 398578012871 trimer interface [polypeptide binding]; other site 398578012872 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398578012873 eyelet of channel; other site 398578012874 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398578012875 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398578012876 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398578012877 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578012878 dimer interface [polypeptide binding]; other site 398578012879 putative CheW interface [polypeptide binding]; other site 398578012880 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398578012881 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398578012882 NAD(P) binding site [chemical binding]; other site 398578012883 active site 398578012884 NMT1/THI5 like; Region: NMT1; pfam09084 398578012885 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 398578012886 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 398578012887 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 398578012888 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 398578012889 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578012890 Walker A/P-loop; other site 398578012891 ATP binding site [chemical binding]; other site 398578012892 Q-loop/lid; other site 398578012893 ABC transporter signature motif; other site 398578012894 Walker B; other site 398578012895 D-loop; other site 398578012896 H-loop/switch region; other site 398578012897 Acyl-CoA reductase LuxC; Region: ALDH_Acyl-CoA-Red_LuxC; cd07080 398578012898 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 398578012899 putative catalytic cysteine [active] 398578012900 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 398578012901 Protein of unknown function (DUF418); Region: DUF418; pfam04235 398578012902 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578012903 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578012904 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 398578012905 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 398578012906 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 398578012907 MarR family; Region: MarR_2; pfam12802 398578012908 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 398578012909 active site 398578012910 Tannase and feruloyl esterase; Region: Tannase; pfam07519 398578012911 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 398578012912 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398578012913 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 398578012914 trimer interface [polypeptide binding]; other site 398578012915 eyelet of channel; other site 398578012916 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578012917 Predicted transcriptional regulator [Transcription]; Region: COG1959 398578012918 Transcriptional regulator; Region: Rrf2; pfam02082 398578012919 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 398578012920 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 398578012921 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 398578012922 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578012923 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 398578012924 acyl-activating enzyme (AAE) consensus motif; other site 398578012925 putative AMP binding site [chemical binding]; other site 398578012926 putative active site [active] 398578012927 putative CoA binding site [chemical binding]; other site 398578012928 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 398578012929 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578012930 LysR family transcriptional regulator; Provisional; Region: PRK14997 398578012931 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 398578012932 putative effector binding pocket; other site 398578012933 dimerization interface [polypeptide binding]; other site 398578012934 Isochorismatase family; Region: Isochorismatase; pfam00857 398578012935 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 398578012936 catalytic triad [active] 398578012937 conserved cis-peptide bond; other site 398578012938 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 398578012939 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 398578012940 ATP binding site [chemical binding]; other site 398578012941 putative Mg++ binding site [ion binding]; other site 398578012942 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 398578012943 nucleotide binding region [chemical binding]; other site 398578012944 ATP-binding site [chemical binding]; other site 398578012945 Helicase associated domain (HA2); Region: HA2; pfam04408 398578012946 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 398578012947 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 398578012948 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 398578012949 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398578012950 putative active site [active] 398578012951 putative metal binding site [ion binding]; other site 398578012952 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 398578012953 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 398578012954 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 398578012955 substrate binding pocket [chemical binding]; other site 398578012956 membrane-bound complex binding site; other site 398578012957 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578012958 DNA-binding site [nucleotide binding]; DNA binding site 398578012959 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398578012960 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 398578012961 FCD domain; Region: FCD; pfam07729 398578012962 aconitate hydratase; Provisional; Region: acnA; PRK12881 398578012963 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 398578012964 substrate binding site [chemical binding]; other site 398578012965 ligand binding site [chemical binding]; other site 398578012966 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 398578012967 substrate binding site [chemical binding]; other site 398578012968 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578012969 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578012970 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398578012971 Zn2+ binding site [ion binding]; other site 398578012972 Mg2+ binding site [ion binding]; other site 398578012973 AAA domain; Region: AAA_33; pfam13671 398578012974 RNA ligase; Region: RNA_ligase; pfam09414 398578012975 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578012976 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 398578012977 dimerization interface [polypeptide binding]; other site 398578012978 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 398578012979 dimer interface [polypeptide binding]; other site 398578012980 hexamer interface [polypeptide binding]; other site 398578012981 active site 2 [active] 398578012982 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 398578012983 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578012984 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578012985 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 398578012986 dimerization interface [polypeptide binding]; other site 398578012987 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578012988 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 398578012989 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 398578012990 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 398578012991 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 398578012992 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 398578012993 active site 398578012994 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 398578012995 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578012996 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 398578012997 substrate binding pocket [chemical binding]; other site 398578012998 dimerization interface [polypeptide binding]; other site 398578012999 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 398578013000 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398578013001 putative substrate translocation pore; other site 398578013002 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 398578013003 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 398578013004 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 398578013005 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 398578013006 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398578013007 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578013008 Outer membrane efflux protein; Region: OEP; pfam02321 398578013009 N-acetylglutamate synthase; Validated; Region: PRK05279 398578013010 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 398578013011 putative feedback inhibition sensing region; other site 398578013012 putative nucleotide binding site [chemical binding]; other site 398578013013 putative substrate binding site [chemical binding]; other site 398578013014 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398578013015 Coenzyme A binding pocket [chemical binding]; other site 398578013016 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 398578013017 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398578013018 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578013019 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 398578013020 dimerization interface [polypeptide binding]; other site 398578013021 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398578013022 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398578013023 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 398578013024 putative N-terminal domain interface [polypeptide binding]; other site 398578013025 putative dimer interface [polypeptide binding]; other site 398578013026 putative substrate binding pocket (H-site) [chemical binding]; other site 398578013027 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398578013028 MarR family; Region: MarR_2; pfam12802 398578013029 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 398578013030 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 398578013031 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 398578013032 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 398578013033 NAD(P) binding site [chemical binding]; other site 398578013034 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398578013035 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 398578013036 TM-ABC transporter signature motif; other site 398578013037 short chain dehydrogenase; Provisional; Region: PRK06841 398578013038 classical (c) SDRs; Region: SDR_c; cd05233 398578013039 NAD(P) binding site [chemical binding]; other site 398578013040 active site 398578013041 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 398578013042 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 398578013043 putative ligand binding site [chemical binding]; other site 398578013044 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398578013045 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 398578013046 Walker A/P-loop; other site 398578013047 ATP binding site [chemical binding]; other site 398578013048 Q-loop/lid; other site 398578013049 ABC transporter signature motif; other site 398578013050 Walker B; other site 398578013051 D-loop; other site 398578013052 H-loop/switch region; other site 398578013053 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 398578013054 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 398578013055 dihydroxyacetone kinase; Provisional; Region: PRK14479 398578013056 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 398578013057 DAK2 domain; Region: Dak2; pfam02734 398578013058 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 398578013059 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 398578013060 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 398578013061 Walker A/P-loop; other site 398578013062 ATP binding site [chemical binding]; other site 398578013063 Q-loop/lid; other site 398578013064 ABC transporter signature motif; other site 398578013065 Walker B; other site 398578013066 D-loop; other site 398578013067 H-loop/switch region; other site 398578013068 TOBE-like domain; Region: TOBE_3; pfam12857 398578013069 sulfate transport protein; Provisional; Region: cysT; CHL00187 398578013070 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 398578013071 dimer interface [polypeptide binding]; other site 398578013072 conserved gate region; other site 398578013073 putative PBP binding loops; other site 398578013074 ABC-ATPase subunit interface; other site 398578013075 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 398578013076 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 398578013077 dimer interface [polypeptide binding]; other site 398578013078 conserved gate region; other site 398578013079 putative PBP binding loops; other site 398578013080 ABC-ATPase subunit interface; other site 398578013081 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 398578013082 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398578013083 Serine hydrolase; Region: Ser_hydrolase; pfam06821 398578013084 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398578013085 LysR family transcriptional regulator; Provisional; Region: PRK14997 398578013086 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578013087 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 398578013088 putative effector binding pocket; other site 398578013089 putative dimerization interface [polypeptide binding]; other site 398578013090 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 398578013091 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398578013092 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398578013093 Predicted flavoprotein [General function prediction only]; Region: COG0431 398578013094 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 398578013095 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 398578013096 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 398578013097 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398578013098 Walker A/P-loop; other site 398578013099 ATP binding site [chemical binding]; other site 398578013100 Q-loop/lid; other site 398578013101 ABC transporter signature motif; other site 398578013102 Walker B; other site 398578013103 D-loop; other site 398578013104 H-loop/switch region; other site 398578013105 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 398578013106 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 398578013107 Walker A/P-loop; other site 398578013108 ATP binding site [chemical binding]; other site 398578013109 Q-loop/lid; other site 398578013110 ABC transporter signature motif; other site 398578013111 Walker B; other site 398578013112 D-loop; other site 398578013113 H-loop/switch region; other site 398578013114 Cobalt transport protein; Region: CbiQ; cl00463 398578013115 BioY family; Region: BioY; pfam02632 398578013116 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 398578013117 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578013118 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578013119 active site 398578013120 CoA binding site [chemical binding]; other site 398578013121 AMP binding site [chemical binding]; other site 398578013122 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 398578013123 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 398578013124 active site 398578013125 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 398578013126 putative FMN binding site [chemical binding]; other site 398578013127 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 398578013128 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 398578013129 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 398578013130 dimer interface [polypeptide binding]; other site 398578013131 ssDNA binding site [nucleotide binding]; other site 398578013132 tetramer (dimer of dimers) interface [polypeptide binding]; other site 398578013133 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398578013134 FAD binding domain; Region: FAD_binding_4; pfam01565 398578013135 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 398578013136 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398578013137 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578013138 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 398578013139 dimerization interface [polypeptide binding]; other site 398578013140 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 398578013141 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 398578013142 DNA binding residues [nucleotide binding] 398578013143 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 398578013144 IHF - DNA interface [nucleotide binding]; other site 398578013145 IHF dimer interface [polypeptide binding]; other site 398578013146 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 398578013147 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 398578013148 putative tRNA-binding site [nucleotide binding]; other site 398578013149 B3/4 domain; Region: B3_4; pfam03483 398578013150 tRNA synthetase B5 domain; Region: B5; smart00874 398578013151 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 398578013152 dimer interface [polypeptide binding]; other site 398578013153 motif 1; other site 398578013154 motif 3; other site 398578013155 motif 2; other site 398578013156 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 398578013157 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 398578013158 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 398578013159 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 398578013160 dimer interface [polypeptide binding]; other site 398578013161 motif 1; other site 398578013162 active site 398578013163 motif 2; other site 398578013164 motif 3; other site 398578013165 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 398578013166 23S rRNA binding site [nucleotide binding]; other site 398578013167 L21 binding site [polypeptide binding]; other site 398578013168 L13 binding site [polypeptide binding]; other site 398578013169 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 398578013170 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 398578013171 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 398578013172 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 398578013173 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 398578013174 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 398578013175 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 398578013176 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 398578013177 active site 398578013178 dimer interface [polypeptide binding]; other site 398578013179 motif 1; other site 398578013180 motif 2; other site 398578013181 motif 3; other site 398578013182 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 398578013183 anticodon binding site; other site 398578013184 isocitrate lyase; Provisional; Region: PRK15063 398578013185 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 398578013186 tetramer interface [polypeptide binding]; other site 398578013187 active site 398578013188 Mg2+/Mn2+ binding site [ion binding]; other site 398578013189 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 398578013190 EamA-like transporter family; Region: EamA; pfam00892 398578013191 EamA-like transporter family; Region: EamA; pfam00892 398578013192 SWI complex, BAF60b domains; Region: SWIB; smart00151 398578013193 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 398578013194 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 398578013195 active site 398578013196 substrate binding site [chemical binding]; other site 398578013197 FMN binding site [chemical binding]; other site 398578013198 putative catalytic residues [active] 398578013199 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 398578013200 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 398578013201 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 398578013202 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 398578013203 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 398578013204 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 398578013205 Hemin uptake protein hemP; Region: hemP; pfam10636 398578013206 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 398578013207 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 398578013208 YccA-like proteins; Region: YccA_like; cd10433 398578013209 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 398578013210 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 398578013211 Predicted transcriptional regulators [Transcription]; Region: COG1510 398578013212 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 398578013213 dimerization interface [polypeptide binding]; other site 398578013214 putative DNA binding site [nucleotide binding]; other site 398578013215 putative Zn2+ binding site [ion binding]; other site 398578013216 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 398578013217 putative NAD(P) binding site [chemical binding]; other site 398578013218 active site 398578013219 DoxX-like family; Region: DoxX_3; pfam13781 398578013220 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 398578013221 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 398578013222 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 398578013223 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 398578013224 Walker A/P-loop; other site 398578013225 ATP binding site [chemical binding]; other site 398578013226 Q-loop/lid; other site 398578013227 ABC transporter signature motif; other site 398578013228 Walker B; other site 398578013229 D-loop; other site 398578013230 H-loop/switch region; other site 398578013231 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 398578013232 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 398578013233 putative PBP binding loops; other site 398578013234 dimer interface [polypeptide binding]; other site 398578013235 ABC-ATPase subunit interface; other site 398578013236 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 398578013237 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 398578013238 active site 398578013239 dimer interface [polypeptide binding]; other site 398578013240 non-prolyl cis peptide bond; other site 398578013241 insertion regions; other site 398578013242 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 398578013243 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 398578013244 substrate binding pocket [chemical binding]; other site 398578013245 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 398578013246 membrane-bound complex binding site; other site 398578013247 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 398578013248 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 398578013249 substrate binding pocket [chemical binding]; other site 398578013250 membrane-bound complex binding site; other site 398578013251 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 398578013252 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398578013253 substrate binding pocket [chemical binding]; other site 398578013254 membrane-bound complex binding site; other site 398578013255 oxidative damage protection protein; Provisional; Region: PRK05408 398578013256 Predicted membrane protein [Function unknown]; Region: COG2860 398578013257 UPF0126 domain; Region: UPF0126; pfam03458 398578013258 UPF0126 domain; Region: UPF0126; pfam03458 398578013259 Uncharacterized conserved protein [Function unknown]; Region: COG4121 398578013260 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 398578013261 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 398578013262 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 398578013263 N-terminal plug; other site 398578013264 ligand-binding site [chemical binding]; other site 398578013265 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 398578013266 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 398578013267 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 398578013268 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 398578013269 putative metal binding site [ion binding]; other site 398578013270 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 398578013271 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 398578013272 putative PBP binding regions; other site 398578013273 ABC-ATPase subunit interface; other site 398578013274 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 398578013275 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 398578013276 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 398578013277 Walker A/P-loop; other site 398578013278 ATP binding site [chemical binding]; other site 398578013279 Q-loop/lid; other site 398578013280 ABC transporter signature motif; other site 398578013281 Walker B; other site 398578013282 D-loop; other site 398578013283 H-loop/switch region; other site 398578013284 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 398578013285 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 398578013286 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 398578013287 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 398578013288 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 398578013289 Active Sites [active] 398578013290 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 398578013291 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 398578013292 Active Sites [active] 398578013293 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 398578013294 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 398578013295 G1 box; other site 398578013296 GTP/Mg2+ binding site [chemical binding]; other site 398578013297 G2 box; other site 398578013298 Switch I region; other site 398578013299 G3 box; other site 398578013300 Switch II region; other site 398578013301 G4 box; other site 398578013302 G5 box; other site 398578013303 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 398578013304 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 398578013305 Ferredoxin [Energy production and conversion]; Region: COG1146 398578013306 4Fe-4S binding domain; Region: Fer4; cl02805 398578013307 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 398578013308 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 398578013309 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398578013310 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 398578013311 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 398578013312 rRNA binding site [nucleotide binding]; other site 398578013313 predicted 30S ribosome binding site; other site 398578013314 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398578013315 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 398578013316 non-specific DNA binding site [nucleotide binding]; other site 398578013317 salt bridge; other site 398578013318 sequence-specific DNA binding site [nucleotide binding]; other site 398578013319 Domain of unknown function (DUF955); Region: DUF955; cl01076 398578013320 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 398578013321 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 398578013322 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 398578013323 Mu-like prophage protein [General function prediction only]; Region: COG3941 398578013324 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 398578013325 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 398578013326 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 398578013327 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 398578013328 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 398578013329 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 398578013330 DNA-binding interface [nucleotide binding]; DNA binding site 398578013331 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 398578013332 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 398578013333 Protein of unknown function (DUF1376); Region: DUF1376; pfam07120 398578013334 Phage regulatory protein CII (CP76); Region: Phage_CP76; pfam06892 398578013335 HNH endonuclease; Region: HNH_3; pfam13392 398578013336 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 398578013337 HNH endonuclease; Region: HNH_2; pfam13391 398578013338 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 398578013339 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 398578013340 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 398578013341 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 398578013342 active site 398578013343 DNA binding site [nucleotide binding] 398578013344 Int/Topo IB signature motif; other site 398578013345 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 398578013346 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 398578013347 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398578013348 putative C-terminal domain interface [polypeptide binding]; other site 398578013349 putative GSH binding site (G-site) [chemical binding]; other site 398578013350 putative dimer interface [polypeptide binding]; other site 398578013351 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 398578013352 putative N-terminal domain interface [polypeptide binding]; other site 398578013353 putative dimer interface [polypeptide binding]; other site 398578013354 putative substrate binding pocket (H-site) [chemical binding]; other site 398578013355 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 398578013356 RNA/DNA hybrid binding site [nucleotide binding]; other site 398578013357 active site 398578013358 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 398578013359 Bacterial Ig-like domain; Region: Big_5; pfam13205 398578013360 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 398578013361 generic binding surface II; other site 398578013362 generic binding surface I; other site 398578013363 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 398578013364 putative active site [active] 398578013365 putative catalytic site [active] 398578013366 putative Mg binding site IVb [ion binding]; other site 398578013367 putative phosphate binding site [ion binding]; other site 398578013368 putative DNA binding site [nucleotide binding]; other site 398578013369 putative Mg binding site IVa [ion binding]; other site 398578013370 IPTL-CTERM protein sorting domain; Region: IPTL_CTERM; TIGR04174 398578013371 H-NS histone family; Region: Histone_HNS; pfam00816 398578013372 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 398578013373 phosphoglycolate phosphatase; Provisional; Region: PRK13222 398578013374 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 398578013375 motif I; other site 398578013376 active site 398578013377 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 398578013378 motif II; other site 398578013379 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 398578013380 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 398578013381 S-adenosylmethionine binding site [chemical binding]; other site 398578013382 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398578013383 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398578013384 ligand binding site [chemical binding]; other site 398578013385 DNA gyrase subunit A; Validated; Region: PRK05560 398578013386 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 398578013387 CAP-like domain; other site 398578013388 active site 398578013389 primary dimer interface [polypeptide binding]; other site 398578013390 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398578013391 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398578013392 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398578013393 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398578013394 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398578013395 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398578013396 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 398578013397 homodimer interface [polypeptide binding]; other site 398578013398 substrate-cofactor binding pocket; other site 398578013399 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578013400 catalytic residue [active] 398578013401 Chorismate mutase type II; Region: CM_2; pfam01817 398578013402 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 398578013403 Prephenate dehydratase; Region: PDT; pfam00800 398578013404 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 398578013405 putative L-Phe binding site [chemical binding]; other site 398578013406 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 398578013407 prephenate dehydrogenase; Validated; Region: PRK08507 398578013408 bifunctional 3-phosphoshikimate 1-carboxyvinyltransferase/cytidine monophosphate kinase; Provisional; Region: PRK11860 398578013409 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 398578013410 hinge; other site 398578013411 active site 398578013412 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 398578013413 CMP-binding site; other site 398578013414 The sites determining sugar specificity; other site 398578013415 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 398578013416 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 398578013417 RNA binding site [nucleotide binding]; other site 398578013418 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 398578013419 RNA binding site [nucleotide binding]; other site 398578013420 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 398578013421 RNA binding site [nucleotide binding]; other site 398578013422 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 398578013423 RNA binding site [nucleotide binding]; other site 398578013424 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 398578013425 RNA binding site [nucleotide binding]; other site 398578013426 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 398578013427 RNA binding site [nucleotide binding]; other site 398578013428 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 398578013429 IHF dimer interface [polypeptide binding]; other site 398578013430 IHF - DNA interface [nucleotide binding]; other site 398578013431 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 398578013432 tetratricopeptide repeat protein; Provisional; Region: PRK11788 398578013433 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 398578013434 binding surface 398578013435 TPR motif; other site 398578013436 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 398578013437 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 398578013438 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 398578013439 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 398578013440 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 398578013441 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 398578013442 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 398578013443 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 398578013444 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 398578013445 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 398578013446 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 398578013447 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 398578013448 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; pfam03334 398578013449 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 398578013450 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 398578013451 putative substrate translocation pore; other site 398578013452 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398578013453 RmuC family; Region: RmuC; pfam02646 398578013454 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 398578013455 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 398578013456 dimerization interface [polypeptide binding]; other site 398578013457 ligand binding site [chemical binding]; other site 398578013458 NADP binding site [chemical binding]; other site 398578013459 catalytic site [active] 398578013460 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 398578013461 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 398578013462 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 398578013463 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 398578013464 active site 398578013465 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 398578013466 active site 398578013467 Phasin protein; Region: Phasin_2; pfam09361 398578013468 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 398578013469 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 398578013470 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 398578013471 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 398578013472 NAD binding site [chemical binding]; other site 398578013473 homodimer interface [polypeptide binding]; other site 398578013474 homotetramer interface [polypeptide binding]; other site 398578013475 active site 398578013476 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 398578013477 active site 398578013478 cosubstrate binding site; other site 398578013479 substrate binding site [chemical binding]; other site 398578013480 catalytic site [active] 398578013481 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 398578013482 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398578013483 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 398578013484 Walker A/P-loop; other site 398578013485 ATP binding site [chemical binding]; other site 398578013486 Q-loop/lid; other site 398578013487 ABC transporter signature motif; other site 398578013488 Walker B; other site 398578013489 D-loop; other site 398578013490 H-loop/switch region; other site 398578013491 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 398578013492 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 398578013493 substrate binding pocket [chemical binding]; other site 398578013494 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 398578013495 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 398578013496 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 398578013497 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398578013498 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398578013499 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 398578013500 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 398578013501 DNA binding residues [nucleotide binding] 398578013502 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 398578013503 FecR protein; Region: FecR; pfam04773 398578013504 Secretin and TonB N terminus short domain; Region: STN; smart00965 398578013505 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 398578013506 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 398578013507 N-terminal plug; other site 398578013508 ligand-binding site [chemical binding]; other site 398578013509 Condensation domain; Region: Condensation; pfam00668 398578013510 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 398578013511 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 398578013512 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 398578013513 acyl-activating enzyme (AAE) consensus motif; other site 398578013514 AMP binding site [chemical binding]; other site 398578013515 Condensation domain; Region: Condensation; pfam00668 398578013516 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 398578013517 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 398578013518 acyl-activating enzyme (AAE) consensus motif; other site 398578013519 AMP binding site [chemical binding]; other site 398578013520 peptide synthase; Provisional; Region: PRK12467 398578013521 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 398578013522 acyl-activating enzyme (AAE) consensus motif; other site 398578013523 AMP binding site [chemical binding]; other site 398578013524 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 398578013525 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 398578013526 acyl-activating enzyme (AAE) consensus motif; other site 398578013527 AMP binding site [chemical binding]; other site 398578013528 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 398578013529 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 398578013530 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 398578013531 acyl-activating enzyme (AAE) consensus motif; other site 398578013532 AMP binding site [chemical binding]; other site 398578013533 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 398578013534 Condensation domain; Region: Condensation; pfam00668 398578013535 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 398578013536 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 398578013537 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 398578013538 acyl-activating enzyme (AAE) consensus motif; other site 398578013539 AMP binding site [chemical binding]; other site 398578013540 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 398578013541 Condensation domain; Region: Condensation; pfam00668 398578013542 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 398578013543 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 398578013544 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 398578013545 acyl-activating enzyme (AAE) consensus motif; other site 398578013546 AMP binding site [chemical binding]; other site 398578013547 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 398578013548 Condensation domain; Region: Condensation; pfam00668 398578013549 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 398578013550 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 398578013551 acyl-activating enzyme (AAE) consensus motif; other site 398578013552 AMP binding site [chemical binding]; other site 398578013553 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 398578013554 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 398578013555 active site 398578013556 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 398578013557 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 398578013558 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398578013559 NAD(P) binding site [chemical binding]; other site 398578013560 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 398578013561 active site 398578013562 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 398578013563 acyl-CoA synthetase; Validated; Region: PRK05850 398578013564 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 398578013565 acyl-activating enzyme (AAE) consensus motif; other site 398578013566 active site 398578013567 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 398578013568 Condensation domain; Region: Condensation; pfam00668 398578013569 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 398578013570 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 398578013571 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 398578013572 acyl-activating enzyme (AAE) consensus motif; other site 398578013573 AMP binding site [chemical binding]; other site 398578013574 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 398578013575 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 398578013576 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 398578013577 substrate binding pocket [chemical binding]; other site 398578013578 active site 398578013579 iron coordination sites [ion binding]; other site 398578013580 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 398578013581 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 398578013582 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 398578013583 MbtH-like protein; Region: MbtH; cl01279 398578013584 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 398578013585 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398578013586 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 398578013587 DNA binding residues [nucleotide binding] 398578013588 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 398578013589 Nitrogen regulatory protein P-II; Region: P-II; smart00938 398578013590 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 398578013591 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398578013592 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 398578013593 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578013594 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 398578013595 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 398578013596 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 398578013597 active site 398578013598 HIGH motif; other site 398578013599 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 398578013600 active site 398578013601 KMSKS motif; other site 398578013602 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 398578013603 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 398578013604 homodimer interface [polypeptide binding]; other site 398578013605 substrate-cofactor binding pocket; other site 398578013606 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578013607 catalytic residue [active] 398578013608 amidophosphoribosyltransferase; Provisional; Region: PRK09246 398578013609 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 398578013610 active site 398578013611 tetramer interface [polypeptide binding]; other site 398578013612 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398578013613 active site 398578013614 Colicin V production protein; Region: Colicin_V; pfam02674 398578013615 Sporulation related domain; Region: SPOR; pfam05036 398578013616 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 398578013617 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398578013618 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398578013619 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 398578013620 ArsC family; Region: ArsC; pfam03960 398578013621 putative catalytic residues [active] 398578013622 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 398578013623 argininosuccinate synthase; Validated; Region: PRK05370 398578013624 argininosuccinate synthase; Provisional; Region: PRK13820 398578013625 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578013626 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578013627 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 398578013628 putative effector binding pocket; other site 398578013629 dimerization interface [polypeptide binding]; other site 398578013630 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 398578013631 SPW repeat; Region: SPW; pfam03779 398578013632 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 398578013633 FAD binding domain; Region: FAD_binding_4; pfam01565 398578013634 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 398578013635 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 398578013636 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 398578013637 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 398578013638 catalytic motif [active] 398578013639 Catalytic residue [active] 398578013640 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 398578013641 spermidine synthase; Provisional; Region: PRK03612 398578013642 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 398578013643 S-adenosylmethionine binding site [chemical binding]; other site 398578013644 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 398578013645 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 398578013646 N-terminal plug; other site 398578013647 ligand-binding site [chemical binding]; other site 398578013648 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 398578013649 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 398578013650 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 398578013651 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 398578013652 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 398578013653 putative deacylase active site [active] 398578013654 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 398578013655 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 398578013656 salt bridge; other site 398578013657 non-specific DNA binding site [nucleotide binding]; other site 398578013658 sequence-specific DNA binding site [nucleotide binding]; other site 398578013659 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 398578013660 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398578013661 active site 398578013662 catalytic tetrad [active] 398578013663 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 398578013664 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 398578013665 dimer interface [polypeptide binding]; other site 398578013666 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 398578013667 active site 398578013668 Fe binding site [ion binding]; other site 398578013669 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 398578013670 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578013671 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578013672 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578013673 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578013674 LysR substrate binding domain; Region: LysR_substrate; pfam03466 398578013675 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 398578013676 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578013677 Walker A/P-loop; other site 398578013678 ATP binding site [chemical binding]; other site 398578013679 Q-loop/lid; other site 398578013680 ABC transporter signature motif; other site 398578013681 Walker B; other site 398578013682 D-loop; other site 398578013683 H-loop/switch region; other site 398578013684 TOBE domain; Region: TOBE_2; pfam08402 398578013685 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 398578013686 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 398578013687 dimer interface [polypeptide binding]; other site 398578013688 conserved gate region; other site 398578013689 putative PBP binding loops; other site 398578013690 ABC-ATPase subunit interface; other site 398578013691 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 398578013692 dimer interface [polypeptide binding]; other site 398578013693 conserved gate region; other site 398578013694 putative PBP binding loops; other site 398578013695 ABC-ATPase subunit interface; other site 398578013696 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 398578013697 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398578013698 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 398578013699 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 398578013700 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398578013701 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398578013702 PGAP1-like protein; Region: PGAP1; pfam07819 398578013703 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 398578013704 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 398578013705 active site 398578013706 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 398578013707 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 398578013708 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 398578013709 dimer interface [polypeptide binding]; other site 398578013710 catalytic triad [active] 398578013711 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 398578013712 nucleoside/Zn binding site; other site 398578013713 dimer interface [polypeptide binding]; other site 398578013714 catalytic motif [active] 398578013715 haloalkane dehalogenase; Provisional; Region: PRK00870 398578013716 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398578013717 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 398578013718 dimerization interface [polypeptide binding]; other site 398578013719 ligand binding site [chemical binding]; other site 398578013720 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 398578013721 Peptidase family U32; Region: Peptidase_U32; pfam01136 398578013722 Collagenase; Region: DUF3656; pfam12392 398578013723 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 398578013724 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 398578013725 putative molybdopterin cofactor binding site [chemical binding]; other site 398578013726 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 398578013727 putative molybdopterin cofactor binding site; other site 398578013728 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 398578013729 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 398578013730 AAA ATPase domain; Region: AAA_16; pfam13191 398578013731 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 398578013732 DNA binding residues [nucleotide binding] 398578013733 dimerization interface [polypeptide binding]; other site 398578013734 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398578013735 NAD(P) binding site [chemical binding]; other site 398578013736 active site 398578013737 acetyl-CoA acetyltransferase; Provisional; Region: PRK06504 398578013738 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 398578013739 dimer interface [polypeptide binding]; other site 398578013740 active site 398578013741 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398578013742 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 398578013743 Walker A/P-loop; other site 398578013744 ATP binding site [chemical binding]; other site 398578013745 Q-loop/lid; other site 398578013746 ABC transporter signature motif; other site 398578013747 Walker B; other site 398578013748 D-loop; other site 398578013749 H-loop/switch region; other site 398578013750 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398578013751 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 398578013752 Walker A/P-loop; other site 398578013753 ATP binding site [chemical binding]; other site 398578013754 Q-loop/lid; other site 398578013755 ABC transporter signature motif; other site 398578013756 Walker B; other site 398578013757 D-loop; other site 398578013758 H-loop/switch region; other site 398578013759 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398578013760 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 398578013761 TM-ABC transporter signature motif; other site 398578013762 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398578013763 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 398578013764 TM-ABC transporter signature motif; other site 398578013765 enoyl-CoA hydratase; Provisional; Region: PRK05981 398578013766 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 398578013767 substrate binding site [chemical binding]; other site 398578013768 oxyanion hole (OAH) forming residues; other site 398578013769 trimer interface [polypeptide binding]; other site 398578013770 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 398578013771 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398578013772 putative ligand binding site [chemical binding]; other site 398578013773 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 398578013774 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 398578013775 dimer interface [polypeptide binding]; other site 398578013776 acyl-activating enzyme (AAE) consensus motif; other site 398578013777 putative active site [active] 398578013778 AMP binding site [chemical binding]; other site 398578013779 putative CoA binding site [chemical binding]; other site 398578013780 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398578013781 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398578013782 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 398578013783 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578013784 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 398578013785 acyl-activating enzyme (AAE) consensus motif; other site 398578013786 acyl-activating enzyme (AAE) consensus motif; other site 398578013787 putative AMP binding site [chemical binding]; other site 398578013788 putative active site [active] 398578013789 putative CoA binding site [chemical binding]; other site 398578013790 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398578013791 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578013792 active site 398578013793 short chain dehydrogenase; Provisional; Region: PRK07677 398578013794 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 398578013795 NAD(P) binding site [chemical binding]; other site 398578013796 substrate binding site [chemical binding]; other site 398578013797 homotetramer interface [polypeptide binding]; other site 398578013798 active site 398578013799 homodimer interface [polypeptide binding]; other site 398578013800 enoyl-CoA hydratase; Provisional; Region: PRK07509 398578013801 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 398578013802 substrate binding site [chemical binding]; other site 398578013803 oxyanion hole (OAH) forming residues; other site 398578013804 trimer interface [polypeptide binding]; other site 398578013805 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 398578013806 catalytic site [active] 398578013807 putative active site [active] 398578013808 putative substrate binding site [chemical binding]; other site 398578013809 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578013810 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578013811 metal binding site [ion binding]; metal-binding site 398578013812 active site 398578013813 I-site; other site 398578013814 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 398578013815 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 398578013816 homodimer interface [polypeptide binding]; other site 398578013817 substrate-cofactor binding pocket; other site 398578013818 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578013819 catalytic residue [active] 398578013820 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 398578013821 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 398578013822 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 398578013823 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 398578013824 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 398578013825 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 398578013826 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398578013827 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 398578013828 C-terminal domain interface [polypeptide binding]; other site 398578013829 GSH binding site (G-site) [chemical binding]; other site 398578013830 dimer interface [polypeptide binding]; other site 398578013831 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 398578013832 N-terminal domain interface [polypeptide binding]; other site 398578013833 dimer interface [polypeptide binding]; other site 398578013834 substrate binding pocket (H-site) [chemical binding]; other site 398578013835 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 398578013836 RelB antitoxin; Region: RelB; cl01171 398578013837 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 398578013838 TPR motif; other site 398578013839 Protein of unknown function (DUF808); Region: DUF808; pfam05661 398578013840 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 398578013841 VWA YIEM type: 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...; Region: VWA_YIEM_type; cd01462 398578013842 metal ion-dependent adhesion site (MIDAS); other site 398578013843 MoxR-like ATPases [General function prediction only]; Region: COG0714 398578013844 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 398578013845 SWIM zinc finger; Region: SWIM; pfam04434 398578013846 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 398578013847 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 398578013848 FeS/SAM binding site; other site 398578013849 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 398578013850 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 398578013851 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 398578013852 dimerization interface [polypeptide binding]; other site 398578013853 ATP binding site [chemical binding]; other site 398578013854 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 398578013855 dimerization interface [polypeptide binding]; other site 398578013856 ATP binding site [chemical binding]; other site 398578013857 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 398578013858 putative active site [active] 398578013859 catalytic triad [active] 398578013860 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 398578013861 active site 398578013862 PII uridylyl-transferase; Provisional; Region: PRK03059 398578013863 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 398578013864 metal binding triad; other site 398578013865 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 398578013866 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398578013867 Zn2+ binding site [ion binding]; other site 398578013868 Mg2+ binding site [ion binding]; other site 398578013869 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 398578013870 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 398578013871 xanthine permease; Region: pbuX; TIGR03173 398578013872 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 398578013873 active site 398578013874 catalytic residues [active] 398578013875 metal binding site [ion binding]; metal-binding site 398578013876 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 398578013877 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 398578013878 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 398578013879 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 398578013880 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 398578013881 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398578013882 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398578013883 Bacterial transcriptional regulator; Region: IclR; pfam01614 398578013884 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 398578013885 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 398578013886 2-isopropylmalate synthase; Validated; Region: PRK00915 398578013887 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 398578013888 active site 398578013889 catalytic residues [active] 398578013890 metal binding site [ion binding]; metal-binding site 398578013891 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 398578013892 2-isopropylmalate synthase; Validated; Region: PRK03739 398578013893 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 398578013894 active site 398578013895 catalytic residues [active] 398578013896 metal binding site [ion binding]; metal-binding site 398578013897 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 398578013898 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 398578013899 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 398578013900 ketol-acid reductoisomerase; Provisional; Region: PRK05479 398578013901 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 398578013902 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 398578013903 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 398578013904 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 398578013905 putative valine binding site [chemical binding]; other site 398578013906 dimer interface [polypeptide binding]; other site 398578013907 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 398578013908 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 398578013909 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398578013910 PYR/PP interface [polypeptide binding]; other site 398578013911 dimer interface [polypeptide binding]; other site 398578013912 TPP binding site [chemical binding]; other site 398578013913 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 398578013914 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 398578013915 TPP-binding site [chemical binding]; other site 398578013916 dimer interface [polypeptide binding]; other site 398578013917 RNA polymerase factor sigma-70; Validated; Region: PRK09047 398578013918 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 398578013919 DNA binding residues [nucleotide binding] 398578013920 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 398578013921 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 398578013922 RDD family; Region: RDD; pfam06271 398578013923 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 398578013924 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 398578013925 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 398578013926 Nitrogen regulatory protein P-II; Region: P-II; smart00938 398578013927 NAD synthetase; Provisional; Region: PRK13981 398578013928 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 398578013929 multimer interface [polypeptide binding]; other site 398578013930 active site 398578013931 catalytic triad [active] 398578013932 protein interface 1 [polypeptide binding]; other site 398578013933 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 398578013934 homodimer interface [polypeptide binding]; other site 398578013935 NAD binding pocket [chemical binding]; other site 398578013936 ATP binding pocket [chemical binding]; other site 398578013937 Mg binding site [ion binding]; other site 398578013938 active-site loop [active] 398578013939 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 398578013940 Protein of unknown function, DUF482; Region: DUF482; pfam04339 398578013941 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398578013942 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 398578013943 dimerization interface [polypeptide binding]; other site 398578013944 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398578013945 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578013946 dimer interface [polypeptide binding]; other site 398578013947 putative CheW interface [polypeptide binding]; other site 398578013948 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 398578013949 dimerization interface [polypeptide binding]; other site 398578013950 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578013951 dimer interface [polypeptide binding]; other site 398578013952 putative CheW interface [polypeptide binding]; other site 398578013953 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 398578013954 dimer interface [polypeptide binding]; other site 398578013955 substrate binding site [chemical binding]; other site 398578013956 metal binding sites [ion binding]; metal-binding site 398578013957 Predicted membrane protein [Function unknown]; Region: COG4539 398578013958 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398578013959 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 398578013960 ligand binding site [chemical binding]; other site 398578013961 flexible hinge region; other site 398578013962 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 398578013963 non-specific DNA interactions [nucleotide binding]; other site 398578013964 DNA binding site [nucleotide binding] 398578013965 sequence specific DNA binding site [nucleotide binding]; other site 398578013966 putative cAMP binding site [chemical binding]; other site 398578013967 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398578013968 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 398578013969 NAD(P) binding site [chemical binding]; other site 398578013970 catalytic residues [active] 398578013971 catalytic residues [active] 398578013972 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 398578013973 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398578013974 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 398578013975 NAD(P) binding site [chemical binding]; other site 398578013976 active site 398578013977 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 398578013978 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 398578013979 FeS/SAM binding site; other site 398578013980 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 398578013981 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 398578013982 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 398578013983 GTP binding site; other site 398578013984 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 398578013985 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 398578013986 dimer interface [polypeptide binding]; other site 398578013987 putative functional site; other site 398578013988 putative MPT binding site; other site 398578013989 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 398578013990 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398578013991 catalytic residues [active] 398578013992 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578013993 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578013994 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578013995 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 398578013996 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 398578013997 active site 398578013998 iron coordination sites [ion binding]; other site 398578013999 substrate binding pocket [chemical binding]; other site 398578014000 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 398578014001 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 398578014002 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398578014003 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 398578014004 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 398578014005 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 398578014006 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398578014007 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398578014008 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 398578014009 trimer interface [polypeptide binding]; other site 398578014010 eyelet of channel; other site 398578014011 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 398578014012 RNA/DNA hybrid binding site [nucleotide binding]; other site 398578014013 active site 398578014014 Methyltransferase domain; Region: Methyltransf_11; pfam08241 398578014015 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 398578014016 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 398578014017 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 398578014018 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398578014019 catalytic residue [active] 398578014020 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398578014021 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 398578014022 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 398578014023 MAPEG family; Region: MAPEG; cl09190 398578014024 recombination protein RecR; Reviewed; Region: recR; PRK00076 398578014025 RecR protein; Region: RecR; pfam02132 398578014026 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 398578014027 putative active site [active] 398578014028 putative metal-binding site [ion binding]; other site 398578014029 tetramer interface [polypeptide binding]; other site 398578014030 hypothetical protein; Validated; Region: PRK00153 398578014031 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 398578014032 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 398578014033 Walker A motif; other site 398578014034 ATP binding site [chemical binding]; other site 398578014035 Walker B motif; other site 398578014036 arginine finger; other site 398578014037 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 398578014038 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398578014039 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 398578014040 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 398578014041 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398578014042 catalytic residues [active] 398578014043 transcription termination factor Rho; Provisional; Region: rho; PRK09376 398578014044 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 398578014045 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 398578014046 RNA binding site [nucleotide binding]; other site 398578014047 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 398578014048 multimer interface [polypeptide binding]; other site 398578014049 Walker A motif; other site 398578014050 ATP binding site [chemical binding]; other site 398578014051 Walker B motif; other site 398578014052 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398578014053 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398578014054 Helix-turn-helix domain; Region: HTH_17; pfam12728 398578014055 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 398578014056 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_2; cd06102 398578014057 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 398578014058 dimer interface [polypeptide binding]; other site 398578014059 active site 398578014060 oxalacetate/citrate binding site [chemical binding]; other site 398578014061 citrylCoA binding site [chemical binding]; other site 398578014062 coenzyme A binding site [chemical binding]; other site 398578014063 catalytic triad [active] 398578014064 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 398578014065 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 398578014066 putative efflux protein, MATE family; Region: matE; TIGR00797 398578014067 cation binding site [ion binding]; other site 398578014068 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398578014069 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 398578014070 putative active site [active] 398578014071 heme pocket [chemical binding]; other site 398578014072 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 398578014073 dimer interface [polypeptide binding]; other site 398578014074 phosphorylation site [posttranslational modification] 398578014075 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 398578014076 ATP binding site [chemical binding]; other site 398578014077 Mg2+ binding site [ion binding]; other site 398578014078 G-X-G motif; other site 398578014079 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 398578014080 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 398578014081 active site 398578014082 phosphorylation site [posttranslational modification] 398578014083 intermolecular recognition site; other site 398578014084 dimerization interface [polypeptide binding]; other site 398578014085 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 398578014086 DNA binding site [nucleotide binding] 398578014087 transcriptional regulator PhoU; Provisional; Region: PRK11115 398578014088 PhoU domain; Region: PhoU; pfam01895 398578014089 PhoU domain; Region: PhoU; pfam01895 398578014090 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 398578014091 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 398578014092 Walker A/P-loop; other site 398578014093 ATP binding site [chemical binding]; other site 398578014094 Q-loop/lid; other site 398578014095 ABC transporter signature motif; other site 398578014096 Walker B; other site 398578014097 D-loop; other site 398578014098 H-loop/switch region; other site 398578014099 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 398578014100 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 398578014101 dimer interface [polypeptide binding]; other site 398578014102 conserved gate region; other site 398578014103 putative PBP binding loops; other site 398578014104 ABC-ATPase subunit interface; other site 398578014105 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 398578014106 dimer interface [polypeptide binding]; other site 398578014107 conserved gate region; other site 398578014108 putative PBP binding loops; other site 398578014109 ABC-ATPase subunit interface; other site 398578014110 PBP superfamily domain; Region: PBP_like_2; cl17296 398578014111 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 398578014112 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 398578014113 polyphosphate kinase; Provisional; Region: PRK05443 398578014114 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 398578014115 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 398578014116 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 398578014117 putative active site [active] 398578014118 catalytic site [active] 398578014119 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 398578014120 putative active site [active] 398578014121 catalytic site [active] 398578014122 exopolyphosphatase; Region: exo_poly_only; TIGR03706 398578014123 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 398578014124 PAS domain S-box; Region: sensory_box; TIGR00229 398578014125 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 398578014126 putative active site [active] 398578014127 heme pocket [chemical binding]; other site 398578014128 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578014129 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578014130 metal binding site [ion binding]; metal-binding site 398578014131 active site 398578014132 I-site; other site 398578014133 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 398578014134 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 398578014135 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 398578014136 active site 398578014137 substrate binding site [chemical binding]; other site 398578014138 metal binding site [ion binding]; metal-binding site 398578014139 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 398578014140 dihydropteroate synthase; Region: DHPS; TIGR01496 398578014141 substrate binding pocket [chemical binding]; other site 398578014142 dimer interface [polypeptide binding]; other site 398578014143 inhibitor binding site; inhibition site 398578014144 FtsH Extracellular; Region: FtsH_ext; pfam06480 398578014145 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 398578014146 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 398578014147 Walker A motif; other site 398578014148 ATP binding site [chemical binding]; other site 398578014149 Walker B motif; other site 398578014150 arginine finger; other site 398578014151 Peptidase family M41; Region: Peptidase_M41; pfam01434 398578014152 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 398578014153 FtsJ-like methyltransferase; Region: FtsJ; cl17430 398578014154 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 398578014155 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 398578014156 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 398578014157 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 398578014158 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 398578014159 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398578014160 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 398578014161 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 398578014162 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 398578014163 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 398578014164 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398578014165 ATP-grasp domain; Region: ATP-grasp_4; cl17255 398578014166 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 398578014167 IMP binding site; other site 398578014168 dimer interface [polypeptide binding]; other site 398578014169 interdomain contacts; other site 398578014170 partial ornithine binding site; other site 398578014171 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 398578014172 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 398578014173 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 398578014174 catalytic site [active] 398578014175 subunit interface [polypeptide binding]; other site 398578014176 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 398578014177 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 398578014178 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 398578014179 RNA/DNA hybrid binding site [nucleotide binding]; other site 398578014180 active site 398578014181 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 398578014182 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 398578014183 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 398578014184 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 398578014185 active site 398578014186 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 398578014187 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 398578014188 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 398578014189 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 398578014190 trimer interface [polypeptide binding]; other site 398578014191 active site 398578014192 UDP-GlcNAc binding site [chemical binding]; other site 398578014193 lipid binding site [chemical binding]; lipid-binding site 398578014194 periplasmic chaperone; Provisional; Region: PRK10780 398578014195 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 398578014196 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 398578014197 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 398578014198 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 398578014199 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 398578014200 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 398578014201 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 398578014202 Surface antigen; Region: Bac_surface_Ag; pfam01103 398578014203 zinc metallopeptidase RseP; Provisional; Region: PRK10779 398578014204 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 398578014205 active site 398578014206 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 398578014207 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 398578014208 putative substrate binding region [chemical binding]; other site 398578014209 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 398578014210 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 398578014211 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 398578014212 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 398578014213 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 398578014214 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 398578014215 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 398578014216 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 398578014217 catalytic residue [active] 398578014218 putative FPP diphosphate binding site; other site 398578014219 putative FPP binding hydrophobic cleft; other site 398578014220 dimer interface [polypeptide binding]; other site 398578014221 putative IPP diphosphate binding site; other site 398578014222 ribosome recycling factor; Reviewed; Region: frr; PRK00083 398578014223 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 398578014224 hinge region; other site 398578014225 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 398578014226 putative nucleotide binding site [chemical binding]; other site 398578014227 uridine monophosphate binding site [chemical binding]; other site 398578014228 homohexameric interface [polypeptide binding]; other site 398578014229 elongation factor Ts; Provisional; Region: tsf; PRK09377 398578014230 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 398578014231 Elongation factor TS; Region: EF_TS; pfam00889 398578014232 Elongation factor TS; Region: EF_TS; pfam00889 398578014233 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 398578014234 rRNA interaction site [nucleotide binding]; other site 398578014235 S8 interaction site; other site 398578014236 putative laminin-1 binding site; other site 398578014237 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 398578014238 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 398578014239 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 398578014240 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 398578014241 putative substrate binding site [chemical binding]; other site 398578014242 putative ATP binding site [chemical binding]; other site 398578014243 ribonuclease R; Region: RNase_R; TIGR02063 398578014244 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 398578014245 RNB domain; Region: RNB; pfam00773 398578014246 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 398578014247 RNA binding site [nucleotide binding]; other site 398578014248 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 398578014249 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 398578014250 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 398578014251 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 398578014252 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 398578014253 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 398578014254 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398578014255 catalytic residue [active] 398578014256 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 398578014257 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 398578014258 dimer interface [polypeptide binding]; other site 398578014259 active site 398578014260 glycine-pyridoxal phosphate binding site [chemical binding]; other site 398578014261 folate binding site [chemical binding]; other site 398578014262 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 398578014263 ATP cone domain; Region: ATP-cone; pfam03477 398578014264 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 398578014265 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 398578014266 Tetramer interface [polypeptide binding]; other site 398578014267 active site 398578014268 FMN-binding site [chemical binding]; other site 398578014269 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398578014270 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578014271 FOG: CBS domain [General function prediction only]; Region: COG0517 398578014272 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 398578014273 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 398578014274 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 398578014275 homodimer interface [polypeptide binding]; other site 398578014276 substrate-cofactor binding pocket; other site 398578014277 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578014278 catalytic residue [active] 398578014279 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398578014280 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 398578014281 nucleophilic elbow; other site 398578014282 catalytic triad; other site 398578014283 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 398578014284 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398578014285 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578014286 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 398578014287 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398578014288 Choline/Carnitine o-acyltransferase; Region: Carn_acyltransf; pfam00755 398578014289 Protein of unknown function (DUF962); Region: DUF962; pfam06127 398578014290 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 398578014291 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 398578014292 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398578014293 FAD binding domain; Region: FAD_binding_4; pfam01565 398578014294 thymidylate synthase; Reviewed; Region: thyA; PRK01827 398578014295 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 398578014296 dimerization interface [polypeptide binding]; other site 398578014297 active site 398578014298 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 398578014299 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 398578014300 folate binding site [chemical binding]; other site 398578014301 NADP+ binding site [chemical binding]; other site 398578014302 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 398578014303 active site 398578014304 metal binding site [ion binding]; metal-binding site 398578014305 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 398578014306 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 398578014307 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 398578014308 benzoate transport; Region: 2A0115; TIGR00895 398578014309 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 398578014310 putative substrate translocation pore; other site 398578014311 5-oxoprolinase; Region: PLN02666 398578014312 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 398578014313 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 398578014314 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 398578014315 hypothetical protein; Provisional; Region: PRK05463 398578014316 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578014317 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578014318 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 398578014319 dimerization interface [polypeptide binding]; other site 398578014320 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 398578014321 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578014322 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 398578014323 dimerization interface [polypeptide binding]; other site 398578014324 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578014325 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 398578014326 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 398578014327 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 398578014328 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 398578014329 putative active site pocket [active] 398578014330 putative metal binding site [ion binding]; other site 398578014331 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 398578014332 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 398578014333 inhibitor site; inhibition site 398578014334 active site 398578014335 dimer interface [polypeptide binding]; other site 398578014336 catalytic residue [active] 398578014337 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398578014338 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398578014339 Coenzyme A binding pocket [chemical binding]; other site 398578014340 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 398578014341 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 398578014342 Phage Tail Collar Domain; Region: Collar; pfam07484 398578014343 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 398578014344 Phage Tail Collar Domain; Region: Collar; pfam07484 398578014345 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 398578014346 Phage Tail Collar Domain; Region: Collar; pfam07484 398578014347 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 398578014348 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578014349 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 398578014350 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578014351 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 398578014352 putative dimerization interface [polypeptide binding]; other site 398578014353 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398578014354 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 398578014355 ligand binding site [chemical binding]; other site 398578014356 flexible hinge region; other site 398578014357 cytosine deaminase; Validated; Region: PRK07572 398578014358 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 398578014359 active site 398578014360 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 398578014361 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 398578014362 putative catalytic site [active] 398578014363 putative phosphate binding site [ion binding]; other site 398578014364 active site 398578014365 metal binding site A [ion binding]; metal-binding site 398578014366 DNA binding site [nucleotide binding] 398578014367 putative AP binding site [nucleotide binding]; other site 398578014368 putative metal binding site B [ion binding]; other site 398578014369 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 398578014370 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 398578014371 active site 398578014372 phosphorylation site [posttranslational modification] 398578014373 intermolecular recognition site; other site 398578014374 dimerization interface [polypeptide binding]; other site 398578014375 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 398578014376 Walker A motif; other site 398578014377 ATP binding site [chemical binding]; other site 398578014378 Walker B motif; other site 398578014379 arginine finger; other site 398578014380 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398578014381 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 398578014382 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 398578014383 putative active site [active] 398578014384 heme pocket [chemical binding]; other site 398578014385 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 398578014386 dimer interface [polypeptide binding]; other site 398578014387 phosphorylation site [posttranslational modification] 398578014388 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 398578014389 ATP binding site [chemical binding]; other site 398578014390 Mg2+ binding site [ion binding]; other site 398578014391 G-X-G motif; other site 398578014392 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 398578014393 glutamine synthetase; Provisional; Region: glnA; PRK09469 398578014394 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 398578014395 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 398578014396 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 398578014397 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 398578014398 putative MPT binding site; other site 398578014399 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 398578014400 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 398578014401 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 398578014402 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 398578014403 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 398578014404 NodB motif; other site 398578014405 active site 398578014406 catalytic site [active] 398578014407 metal binding site [ion binding]; metal-binding site 398578014408 Uncharacterized conserved protein [Function unknown]; Region: COG3391 398578014409 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 398578014410 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 398578014411 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398578014412 active site 398578014413 adenylosuccinate synthetase; Provisional; Region: PRK01117 398578014414 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 398578014415 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 398578014416 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 398578014417 dimer interface [polypeptide binding]; other site 398578014418 motif 1; other site 398578014419 active site 398578014420 motif 2; other site 398578014421 motif 3; other site 398578014422 HflC protein; Region: hflC; TIGR01932 398578014423 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 398578014424 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 398578014425 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 398578014426 HflK protein; Region: hflK; TIGR01933 398578014427 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 398578014428 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 398578014429 HflX GTPase family; Region: HflX; cd01878 398578014430 G1 box; other site 398578014431 GTP/Mg2+ binding site [chemical binding]; other site 398578014432 Switch I region; other site 398578014433 G2 box; other site 398578014434 G3 box; other site 398578014435 Switch II region; other site 398578014436 G4 box; other site 398578014437 G5 box; other site 398578014438 bacterial Hfq-like; Region: Hfq; cd01716 398578014439 hexamer interface [polypeptide binding]; other site 398578014440 Sm1 motif; other site 398578014441 RNA binding site [nucleotide binding]; other site 398578014442 Sm2 motif; other site 398578014443 GTP-binding protein Der; Reviewed; Region: PRK00093 398578014444 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 398578014445 G1 box; other site 398578014446 GTP/Mg2+ binding site [chemical binding]; other site 398578014447 Switch I region; other site 398578014448 G2 box; other site 398578014449 Switch II region; other site 398578014450 G3 box; other site 398578014451 G4 box; other site 398578014452 G5 box; other site 398578014453 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 398578014454 G1 box; other site 398578014455 GTP/Mg2+ binding site [chemical binding]; other site 398578014456 Switch I region; other site 398578014457 G2 box; other site 398578014458 G3 box; other site 398578014459 Switch II region; other site 398578014460 G4 box; other site 398578014461 G5 box; other site 398578014462 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 398578014463 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 398578014464 Trp docking motif [polypeptide binding]; other site 398578014465 active site 398578014466 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 398578014467 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 398578014468 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 398578014469 binding surface 398578014470 TPR motif; other site 398578014471 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 398578014472 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 398578014473 dimer interface [polypeptide binding]; other site 398578014474 motif 1; other site 398578014475 active site 398578014476 motif 2; other site 398578014477 motif 3; other site 398578014478 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 398578014479 anticodon binding site; other site 398578014480 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 398578014481 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 398578014482 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 398578014483 Helix-turn-helix domain; Region: HTH_25; pfam13413 398578014484 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 398578014485 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 398578014486 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 398578014487 binding surface 398578014488 TPR motif; other site 398578014489 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 398578014490 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 398578014491 FeS/SAM binding site; other site 398578014492 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 398578014493 active site 398578014494 multimer interface [polypeptide binding]; other site 398578014495 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 398578014496 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 398578014497 RNA binding surface [nucleotide binding]; other site 398578014498 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 398578014499 probable active site [active] 398578014500 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 398578014501 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 398578014502 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 398578014503 RNA binding surface [nucleotide binding]; other site 398578014504 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 398578014505 active site 398578014506 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398578014507 Peptidase family M23; Region: Peptidase_M23; pfam01551 398578014508 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 398578014509 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 398578014510 S-adenosylmethionine binding site [chemical binding]; other site 398578014511 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 398578014512 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 398578014513 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 398578014514 NAD(P) binding site [chemical binding]; other site 398578014515 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578014516 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578014517 metal binding site [ion binding]; metal-binding site 398578014518 active site 398578014519 I-site; other site 398578014520 PhoD-like phosphatase; Region: PhoD; pfam09423 398578014521 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 398578014522 putative active site [active] 398578014523 putative metal binding site [ion binding]; other site 398578014524 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 398578014525 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 398578014526 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 398578014527 putative active site [active] 398578014528 catalytic site [active] 398578014529 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 398578014530 PLD-like domain; Region: PLDc_2; pfam13091 398578014531 putative active site [active] 398578014532 catalytic site [active] 398578014533 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 398578014534 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398578014535 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 398578014536 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 398578014537 active site 398578014538 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 398578014539 acyl-CoA synthetase; Validated; Region: PRK08162 398578014540 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 398578014541 acyl-activating enzyme (AAE) consensus motif; other site 398578014542 putative active site [active] 398578014543 AMP binding site [chemical binding]; other site 398578014544 putative CoA binding site [chemical binding]; other site 398578014545 SPFH domain / Band 7 family; Region: Band_7; pfam01145 398578014546 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 398578014547 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398578014548 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 398578014549 active site 398578014550 phosphorylation site [posttranslational modification] 398578014551 intermolecular recognition site; other site 398578014552 dimerization interface [polypeptide binding]; other site 398578014553 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 398578014554 DNA binding site [nucleotide binding] 398578014555 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398578014556 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 398578014557 ATP binding site [chemical binding]; other site 398578014558 Mg2+ binding site [ion binding]; other site 398578014559 G-X-G motif; other site 398578014560 DNA primase, catalytic core; Region: dnaG; TIGR01391 398578014561 CHC2 zinc finger; Region: zf-CHC2; pfam01807 398578014562 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 398578014563 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 398578014564 active site 398578014565 metal binding site [ion binding]; metal-binding site 398578014566 interdomain interaction site; other site 398578014567 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 398578014568 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 398578014569 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 398578014570 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 398578014571 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 398578014572 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398578014573 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 398578014574 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 398578014575 DNA binding residues [nucleotide binding] 398578014576 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 398578014577 putative active site [active] 398578014578 putative metal binding residues [ion binding]; other site 398578014579 signature motif; other site 398578014580 putative dimer interface [polypeptide binding]; other site 398578014581 putative phosphate binding site [ion binding]; other site 398578014582 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398578014583 Coenzyme A binding pocket [chemical binding]; other site 398578014584 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 398578014585 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578014586 DNA-binding site [nucleotide binding]; DNA binding site 398578014587 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 398578014588 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578014589 homodimer interface [polypeptide binding]; other site 398578014590 catalytic residue [active] 398578014591 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 398578014592 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 398578014593 inhibitor-cofactor binding pocket; inhibition site 398578014594 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578014595 catalytic residue [active] 398578014596 succinic semialdehyde dehydrogenase; Region: PLN02278 398578014597 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 398578014598 tetramerization interface [polypeptide binding]; other site 398578014599 NAD(P) binding site [chemical binding]; other site 398578014600 catalytic residues [active] 398578014601 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 398578014602 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 398578014603 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 398578014604 enterobactin receptor protein; Provisional; Region: PRK13483 398578014605 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 398578014606 N-terminal plug; other site 398578014607 ligand-binding site [chemical binding]; other site 398578014608 Flavodoxin; Region: Flavodoxin_1; pfam00258 398578014609 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like1; cd06200 398578014610 FAD binding pocket [chemical binding]; other site 398578014611 FAD binding motif [chemical binding]; other site 398578014612 catalytic residues [active] 398578014613 NAD binding pocket [chemical binding]; other site 398578014614 phosphate binding motif [ion binding]; other site 398578014615 beta-alpha-beta structure motif; other site 398578014616 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 398578014617 ApbE family; Region: ApbE; pfam02424 398578014618 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 398578014619 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 398578014620 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 398578014621 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 398578014622 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 398578014623 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 398578014624 dimerization interface [polypeptide binding]; other site 398578014625 putative DNA binding site [nucleotide binding]; other site 398578014626 Predicted transcriptional regulators [Transcription]; Region: COG1733 398578014627 putative Zn2+ binding site [ion binding]; other site 398578014628 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 398578014629 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 398578014630 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 398578014631 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 398578014632 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 398578014633 phosphoenolpyruvate synthase; Validated; Region: PRK06464 398578014634 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 398578014635 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 398578014636 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 398578014637 PEP synthetase regulatory protein; Provisional; Region: PRK05339 398578014638 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578014639 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578014640 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 398578014641 putative effector binding pocket; other site 398578014642 dimerization interface [polypeptide binding]; other site 398578014643 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 398578014644 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 398578014645 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 398578014646 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 398578014647 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 398578014648 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 398578014649 N-terminal plug; other site 398578014650 ligand-binding site [chemical binding]; other site 398578014651 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 398578014652 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 398578014653 catalytic residue [active] 398578014654 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 398578014655 catalytic residues [active] 398578014656 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398578014657 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398578014658 alkyl hydroperoxide reductase subunit C; Provisional; Region: PRK10382 398578014659 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 398578014660 dimer interface [polypeptide binding]; other site 398578014661 decamer (pentamer of dimers) interface [polypeptide binding]; other site 398578014662 catalytic triad [active] 398578014663 peroxidatic and resolving cysteines [active] 398578014664 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 398578014665 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 398578014666 heme binding site [chemical binding]; other site 398578014667 ferroxidase pore; other site 398578014668 ferroxidase diiron center [ion binding]; other site 398578014669 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398578014670 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 398578014671 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 398578014672 ATP binding site [chemical binding]; other site 398578014673 Mg2+ binding site [ion binding]; other site 398578014674 G-X-G motif; other site 398578014675 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398578014676 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578014677 DNA-binding site [nucleotide binding]; DNA binding site 398578014678 FCD domain; Region: FCD; pfam07729 398578014679 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 398578014680 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 398578014681 putative substrate translocation pore; other site 398578014682 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; pfam04115 398578014683 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 398578014684 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 398578014685 Uncharacterized conserved protein [Function unknown]; Region: COG2308 398578014686 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 398578014687 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 398578014688 Competence protein; Region: Competence; pfam03772 398578014689 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398578014690 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 398578014691 homotrimer interaction site [polypeptide binding]; other site 398578014692 putative active site [active] 398578014693 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398578014694 HAMP domain; Region: HAMP; pfam00672 398578014695 dimerization interface [polypeptide binding]; other site 398578014696 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398578014697 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578014698 dimer interface [polypeptide binding]; other site 398578014699 putative CheW interface [polypeptide binding]; other site 398578014700 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 398578014701 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 398578014702 CAP-like domain; other site 398578014703 active site 398578014704 primary dimer interface [polypeptide binding]; other site 398578014705 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 398578014706 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 398578014707 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398578014708 catalytic residue [active] 398578014709 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 398578014710 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 398578014711 ATP binding site [chemical binding]; other site 398578014712 Mg2+ binding site [ion binding]; other site 398578014713 G-X-G motif; other site 398578014714 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 398578014715 anchoring element; other site 398578014716 dimer interface [polypeptide binding]; other site 398578014717 ATP binding site [chemical binding]; other site 398578014718 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 398578014719 active site 398578014720 metal binding site [ion binding]; metal-binding site 398578014721 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 398578014722 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 398578014723 putative substrate translocation pore; other site 398578014724 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398578014725 Methyltransferase domain; Region: Methyltransf_23; pfam13489 398578014726 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 398578014727 S-adenosylmethionine binding site [chemical binding]; other site 398578014728 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 398578014729 dihydrodipicolinate synthase; Region: dapA; TIGR00674 398578014730 dimer interface [polypeptide binding]; other site 398578014731 active site 398578014732 catalytic residue [active] 398578014733 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 398578014734 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 398578014735 Uncharacterized conserved protein [Function unknown]; Region: COG2850 398578014736 Cupin-like domain; Region: Cupin_8; pfam13621 398578014737 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398578014738 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578014739 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398578014740 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 398578014741 NAD(P) binding site [chemical binding]; other site 398578014742 catalytic residues [active] 398578014743 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 398578014744 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 398578014745 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 398578014746 Predicted membrane protein [Function unknown]; Region: COG3212 398578014747 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 398578014748 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398578014749 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 398578014750 active site 398578014751 phosphorylation site [posttranslational modification] 398578014752 intermolecular recognition site; other site 398578014753 dimerization interface [polypeptide binding]; other site 398578014754 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 398578014755 DNA binding site [nucleotide binding] 398578014756 sensor protein PhoQ; Provisional; Region: PRK10815 398578014757 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 398578014758 ATP binding site [chemical binding]; other site 398578014759 Mg2+ binding site [ion binding]; other site 398578014760 G-X-G motif; other site 398578014761 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 398578014762 trimer interface [polypeptide binding]; other site 398578014763 active site 398578014764 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 398578014765 Flavoprotein; Region: Flavoprotein; pfam02441 398578014766 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 398578014767 CTP synthetase; Validated; Region: pyrG; PRK05380 398578014768 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 398578014769 Catalytic site [active] 398578014770 active site 398578014771 UTP binding site [chemical binding]; other site 398578014772 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 398578014773 active site 398578014774 putative oxyanion hole; other site 398578014775 catalytic triad [active] 398578014776 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 398578014777 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 398578014778 Uncharacterized conserved protein [Function unknown]; Region: COG5470 398578014779 enolase; Provisional; Region: eno; PRK00077 398578014780 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 398578014781 dimer interface [polypeptide binding]; other site 398578014782 metal binding site [ion binding]; metal-binding site 398578014783 substrate binding pocket [chemical binding]; other site 398578014784 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 398578014785 Septum formation initiator; Region: DivIC; cl17659 398578014786 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 398578014787 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 398578014788 dimerization interface [polypeptide binding]; other site 398578014789 domain crossover interface; other site 398578014790 redox-dependent activation switch; other site 398578014791 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 398578014792 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 398578014793 trimer interface [polypeptide binding]; other site 398578014794 putative metal binding site [ion binding]; other site 398578014795 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 398578014796 dinuclear metal binding motif [ion binding]; other site 398578014797 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 398578014798 EAL domain; Region: EAL; pfam00563 398578014799 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 398578014800 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 398578014801 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 398578014802 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 398578014803 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 398578014804 active site 398578014805 Int/Topo IB signature motif; other site 398578014806 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 398578014807 Predicted permeases [General function prediction only]; Region: COG0679 398578014808 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578014809 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578014810 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 398578014811 dimerization interface [polypeptide binding]; other site 398578014812 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u3; cd11479 398578014813 Na binding site [ion binding]; other site 398578014814 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 398578014815 agmatinase; Region: agmatinase; TIGR01230 398578014816 oligomer interface [polypeptide binding]; other site 398578014817 putative active site [active] 398578014818 Mn binding site [ion binding]; other site 398578014819 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398578014820 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578014821 PAS domain; Region: PAS_9; pfam13426 398578014822 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 398578014823 PAS fold; Region: PAS_3; pfam08447 398578014824 putative active site [active] 398578014825 heme pocket [chemical binding]; other site 398578014826 PAS domain; Region: PAS_9; pfam13426 398578014827 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578014828 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578014829 metal binding site [ion binding]; metal-binding site 398578014830 active site 398578014831 I-site; other site 398578014832 epoxyqueuosine reductase; Region: TIGR00276 398578014833 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 398578014834 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 398578014835 AMIN domain; Region: AMIN; pfam11741 398578014836 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 398578014837 active site 398578014838 metal binding site [ion binding]; metal-binding site 398578014839 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 398578014840 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 398578014841 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 398578014842 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 398578014843 ATP binding site [chemical binding]; other site 398578014844 Mg2+ binding site [ion binding]; other site 398578014845 G-X-G motif; other site 398578014846 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 398578014847 ATP binding site [chemical binding]; other site 398578014848 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 398578014849 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578014850 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 398578014851 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 398578014852 metal binding site [ion binding]; metal-binding site 398578014853 putative dimer interface [polypeptide binding]; other site 398578014854 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 398578014855 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578014856 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 398578014857 dimerization interface [polypeptide binding]; other site 398578014858 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398578014859 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 398578014860 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398578014861 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398578014862 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578014863 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 398578014864 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578014865 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578014866 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 398578014867 putative effector binding pocket; other site 398578014868 putative dimerization interface [polypeptide binding]; other site 398578014869 glutamate dehydrogenase; Provisional; Region: PRK09414 398578014870 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 398578014871 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 398578014872 NAD(P) binding site [chemical binding]; other site 398578014873 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 398578014874 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 398578014875 ATP binding site [chemical binding]; other site 398578014876 putative Mg++ binding site [ion binding]; other site 398578014877 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 398578014878 nucleotide binding region [chemical binding]; other site 398578014879 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 398578014880 AAA ATPase domain; Region: AAA_16; pfam13191 398578014881 Domain of unknown function (DUF4016); Region: DUF4016; pfam13208 398578014882 tellurite resistance protein terB; Region: terB; cd07176 398578014883 putative metal binding site [ion binding]; other site 398578014884 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 398578014885 PLD-like domain; Region: PLDc_2; pfam13091 398578014886 putative homodimer interface [polypeptide binding]; other site 398578014887 putative active site [active] 398578014888 catalytic site [active] 398578014889 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 398578014890 Beta-lactamase; Region: Beta-lactamase; pfam00144 398578014891 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 398578014892 substrate binding site [chemical binding]; other site 398578014893 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398578014894 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 398578014895 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 398578014896 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 398578014897 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 398578014898 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 398578014899 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; cl02529 398578014900 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 398578014901 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 398578014902 active site residue [active] 398578014903 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 398578014904 active site residue [active] 398578014905 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 398578014906 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 398578014907 putative substrate translocation pore; other site 398578014908 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 398578014909 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 398578014910 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398578014911 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398578014912 Walker A/P-loop; other site 398578014913 ATP binding site [chemical binding]; other site 398578014914 Q-loop/lid; other site 398578014915 ABC transporter signature motif; other site 398578014916 Walker B; other site 398578014917 D-loop; other site 398578014918 H-loop/switch region; other site 398578014919 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 398578014920 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 398578014921 FtsX-like permease family; Region: FtsX; pfam02687 398578014922 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 398578014923 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 398578014924 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398578014925 catalytic residue [active] 398578014926 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 398578014927 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 398578014928 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 398578014929 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 398578014930 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 398578014931 TM-ABC transporter signature motif; other site 398578014932 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 398578014933 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398578014934 TM-ABC transporter signature motif; other site 398578014935 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398578014936 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 398578014937 putative ligand binding site [chemical binding]; other site 398578014938 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398578014939 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 398578014940 Walker A/P-loop; other site 398578014941 ATP binding site [chemical binding]; other site 398578014942 Q-loop/lid; other site 398578014943 ABC transporter signature motif; other site 398578014944 Walker B; other site 398578014945 D-loop; other site 398578014946 H-loop/switch region; other site 398578014947 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398578014948 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 398578014949 Walker A/P-loop; other site 398578014950 ATP binding site [chemical binding]; other site 398578014951 Q-loop/lid; other site 398578014952 ABC transporter signature motif; other site 398578014953 Walker B; other site 398578014954 D-loop; other site 398578014955 H-loop/switch region; other site 398578014956 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 398578014957 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 398578014958 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 398578014959 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 398578014960 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 398578014961 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 398578014962 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 398578014963 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 398578014964 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 398578014965 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 398578014966 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 398578014967 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 398578014968 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 398578014969 4Fe-4S binding domain; Region: Fer4; pfam00037 398578014970 4Fe-4S binding domain; Region: Fer4; pfam00037 398578014971 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 398578014972 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 398578014973 NADH dehydrogenase subunit G; Validated; Region: PRK09129 398578014974 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 398578014975 catalytic loop [active] 398578014976 iron binding site [ion binding]; other site 398578014977 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 398578014978 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 398578014979 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 398578014980 SLBB domain; Region: SLBB; pfam10531 398578014981 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 398578014982 NADH dehydrogenase subunit E; Validated; Region: PRK07539 398578014983 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 398578014984 putative dimer interface [polypeptide binding]; other site 398578014985 [2Fe-2S] cluster binding site [ion binding]; other site 398578014986 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 398578014987 NADH dehydrogenase subunit D; Validated; Region: PRK06075 398578014988 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 398578014989 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 398578014990 NADH dehydrogenase subunit B; Validated; Region: PRK06411 398578014991 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 398578014992 Preprotein translocase SecG subunit; Region: SecG; pfam03840 398578014993 triosephosphate isomerase; Provisional; Region: PRK14567 398578014994 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 398578014995 substrate binding site [chemical binding]; other site 398578014996 dimer interface [polypeptide binding]; other site 398578014997 catalytic triad [active] 398578014998 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 398578014999 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 398578015000 NAD(P) binding site [chemical binding]; other site 398578015001 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 398578015002 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 398578015003 RNase E interface [polypeptide binding]; other site 398578015004 trimer interface [polypeptide binding]; other site 398578015005 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 398578015006 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 398578015007 RNase E interface [polypeptide binding]; other site 398578015008 trimer interface [polypeptide binding]; other site 398578015009 active site 398578015010 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 398578015011 putative nucleic acid binding region [nucleotide binding]; other site 398578015012 G-X-X-G motif; other site 398578015013 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 398578015014 RNA binding site [nucleotide binding]; other site 398578015015 domain interface; other site 398578015016 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 398578015017 16S/18S rRNA binding site [nucleotide binding]; other site 398578015018 S13e-L30e interaction site [polypeptide binding]; other site 398578015019 25S rRNA binding site [nucleotide binding]; other site 398578015020 Type II transport protein GspH; Region: GspH; pfam12019 398578015021 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 398578015022 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 398578015023 Type IV pilus assembly protein PilX C-term; Region: PilX; pfam13681 398578015024 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 398578015025 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 398578015026 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 398578015027 LemA family; Region: LemA; cl00742 398578015028 Type II transport protein GspH; Region: GspH; pfam12019 398578015029 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 398578015030 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 398578015031 PilX N-terminal; Region: PilX_N; pfam14341 398578015032 Type IV pilus assembly protein PilX C-term; Region: PilX; pfam13681 398578015033 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 398578015034 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 398578015035 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 398578015036 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 398578015037 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 398578015038 catalytic motif [active] 398578015039 Zn binding site [ion binding]; other site 398578015040 RibD C-terminal domain; Region: RibD_C; cl17279 398578015041 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 398578015042 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 398578015043 putative active site [active] 398578015044 catalytic site [active] 398578015045 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 398578015046 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 398578015047 putative active site [active] 398578015048 catalytic site [active] 398578015049 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 398578015050 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 398578015051 FMN binding site [chemical binding]; other site 398578015052 active site 398578015053 catalytic residues [active] 398578015054 substrate binding site [chemical binding]; other site 398578015055 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 398578015056 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 398578015057 S-adenosylmethionine binding site [chemical binding]; other site 398578015058 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398578015059 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398578015060 Coenzyme A binding pocket [chemical binding]; other site 398578015061 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 398578015062 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 398578015063 NAD(P) binding site [chemical binding]; other site 398578015064 catalytic residues [active] 398578015065 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 398578015066 Clp amino terminal domain; Region: Clp_N; pfam02861 398578015067 Clp amino terminal domain; Region: Clp_N; pfam02861 398578015068 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 398578015069 Walker A motif; other site 398578015070 ATP binding site [chemical binding]; other site 398578015071 Walker B motif; other site 398578015072 arginine finger; other site 398578015073 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 398578015074 Walker A motif; other site 398578015075 ATP binding site [chemical binding]; other site 398578015076 Walker B motif; other site 398578015077 arginine finger; other site 398578015078 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 398578015079 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398578015080 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578015081 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 398578015082 EamA-like transporter family; Region: EamA; pfam00892 398578015083 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 398578015084 MoaE homodimer interface [polypeptide binding]; other site 398578015085 MoaD interaction [polypeptide binding]; other site 398578015086 active site residues [active] 398578015087 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 398578015088 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 398578015089 dimer interface [polypeptide binding]; other site 398578015090 active site 398578015091 catalytic residue [active] 398578015092 Recombinase; Region: Recombinase; pfam07508 398578015093 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 398578015094 MoaE interaction surface [polypeptide binding]; other site 398578015095 MoeB interaction surface [polypeptide binding]; other site 398578015096 thiocarboxylated glycine; other site 398578015097 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 398578015098 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 398578015099 dimer interface [polypeptide binding]; other site 398578015100 putative functional site; other site 398578015101 putative MPT binding site; other site 398578015102 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 398578015103 Walker A motif; other site 398578015104 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 398578015105 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 398578015106 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578015107 catalytic residue [active] 398578015108 homoserine dehydrogenase; Provisional; Region: PRK06349 398578015109 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 398578015110 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 398578015111 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 398578015112 aminotransferase AlaT; Validated; Region: PRK09265 398578015113 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 398578015114 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578015115 homodimer interface [polypeptide binding]; other site 398578015116 catalytic residue [active] 398578015117 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 398578015118 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 398578015119 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 398578015120 catalytic triad [active] 398578015121 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 398578015122 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 398578015123 putative active site [active] 398578015124 PhoH-like protein; Region: PhoH; pfam02562 398578015125 replicative DNA helicase; Region: DnaB; TIGR00665 398578015126 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 398578015127 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 398578015128 Walker A motif; other site 398578015129 ATP binding site [chemical binding]; other site 398578015130 Walker B motif; other site 398578015131 DNA binding loops [nucleotide binding] 398578015132 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 398578015133 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 398578015134 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 398578015135 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 398578015136 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 398578015137 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 398578015138 GrpE; Region: GrpE; pfam01025 398578015139 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 398578015140 dimer interface [polypeptide binding]; other site 398578015141 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 398578015142 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 398578015143 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 398578015144 nucleotide binding site [chemical binding]; other site 398578015145 chaperone protein DnaJ; Provisional; Region: PRK10767 398578015146 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 398578015147 HSP70 interaction site [polypeptide binding]; other site 398578015148 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 398578015149 Zn binding sites [ion binding]; other site 398578015150 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 398578015151 dimer interface [polypeptide binding]; other site 398578015152 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 398578015153 Sel1-like repeats; Region: SEL1; smart00671 398578015154 Sel1-like repeats; Region: SEL1; smart00671 398578015155 Sel1-like repeats; Region: SEL1; smart00671 398578015156 Sel1-like repeats; Region: SEL1; smart00671 398578015157 Sel1-like repeats; Region: SEL1; smart00671 398578015158 Sel1-like repeats; Region: SEL1; smart00671 398578015159 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578015160 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578015161 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 398578015162 putative dimerization interface [polypeptide binding]; other site 398578015163 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 398578015164 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 398578015165 substrate binding site [chemical binding]; other site 398578015166 ligand binding site [chemical binding]; other site 398578015167 Predicted small secreted protein [Function unknown]; Region: COG5510 398578015168 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 398578015169 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 398578015170 substrate binding site [chemical binding]; other site 398578015171 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 398578015172 tartrate dehydrogenase; Region: TTC; TIGR02089 398578015173 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 398578015174 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 398578015175 FimV N-terminal domain; Region: FimV_core; TIGR03505 398578015176 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 398578015177 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 398578015178 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 398578015179 dimerization interface 3.5A [polypeptide binding]; other site 398578015180 active site 398578015181 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 398578015182 active site 398578015183 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 398578015184 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 398578015185 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578015186 catalytic residue [active] 398578015187 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 398578015188 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 398578015189 substrate binding site [chemical binding]; other site 398578015190 active site 398578015191 catalytic residues [active] 398578015192 heterodimer interface [polypeptide binding]; other site 398578015193 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 398578015194 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 398578015195 YGGT family; Region: YGGT; pfam02325 398578015196 YGGT family; Region: YGGT; pfam02325 398578015197 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 398578015198 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 398578015199 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 398578015200 dimer interface [polypeptide binding]; other site 398578015201 putative anticodon binding site; other site 398578015202 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 398578015203 motif 1; other site 398578015204 active site 398578015205 motif 2; other site 398578015206 motif 3; other site 398578015207 Response regulator receiver domain; Region: Response_reg; pfam00072 398578015208 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 398578015209 active site 398578015210 phosphorylation site [posttranslational modification] 398578015211 intermolecular recognition site; other site 398578015212 dimerization interface [polypeptide binding]; other site 398578015213 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578015214 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578015215 metal binding site [ion binding]; metal-binding site 398578015216 active site 398578015217 I-site; other site 398578015218 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 398578015219 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398578015220 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 398578015221 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 398578015222 ATP-grasp domain; Region: ATP-grasp; pfam02222 398578015223 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 398578015224 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 398578015225 DNA-binding site [nucleotide binding]; DNA binding site 398578015226 RNA-binding motif; other site 398578015227 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 398578015228 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 398578015229 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 398578015230 active site 398578015231 ADP/pyrophosphate binding site [chemical binding]; other site 398578015232 dimerization interface [polypeptide binding]; other site 398578015233 allosteric effector site; other site 398578015234 fructose-1,6-bisphosphate binding site; other site 398578015235 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 398578015236 beta-hexosaminidase; Provisional; Region: PRK05337 398578015237 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 398578015238 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 398578015239 active site 398578015240 hydrophilic channel; other site 398578015241 dimerization interface [polypeptide binding]; other site 398578015242 catalytic residues [active] 398578015243 active site lid [active] 398578015244 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 398578015245 Recombination protein O N terminal; Region: RecO_N; pfam11967 398578015246 Recombination protein O C terminal; Region: RecO_C; pfam02565 398578015247 GTPase Era; Reviewed; Region: era; PRK00089 398578015248 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 398578015249 G1 box; other site 398578015250 GTP/Mg2+ binding site [chemical binding]; other site 398578015251 Switch I region; other site 398578015252 G2 box; other site 398578015253 Switch II region; other site 398578015254 G3 box; other site 398578015255 G4 box; other site 398578015256 G5 box; other site 398578015257 KH domain; Region: KH_2; pfam07650 398578015258 ribonuclease III; Reviewed; Region: rnc; PRK00102 398578015259 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 398578015260 dimerization interface [polypeptide binding]; other site 398578015261 active site 398578015262 metal binding site [ion binding]; metal-binding site 398578015263 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 398578015264 dsRNA binding site [nucleotide binding]; other site 398578015265 signal peptidase I; Provisional; Region: PRK10861 398578015266 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 398578015267 Catalytic site [active] 398578015268 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 398578015269 GTP-binding protein LepA; Provisional; Region: PRK05433 398578015270 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 398578015271 G1 box; other site 398578015272 putative GEF interaction site [polypeptide binding]; other site 398578015273 GTP/Mg2+ binding site [chemical binding]; other site 398578015274 Switch I region; other site 398578015275 G2 box; other site 398578015276 G3 box; other site 398578015277 Switch II region; other site 398578015278 G4 box; other site 398578015279 G5 box; other site 398578015280 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 398578015281 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 398578015282 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 398578015283 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 398578015284 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 398578015285 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 398578015286 protein binding site [polypeptide binding]; other site 398578015287 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 398578015288 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 398578015289 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398578015290 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 398578015291 DNA binding residues [nucleotide binding] 398578015292 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 398578015293 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 398578015294 dimer interface [polypeptide binding]; other site 398578015295 active site 398578015296 acyl carrier protein; Provisional; Region: acpP; PRK00982 398578015297 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 398578015298 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 398578015299 NAD(P) binding site [chemical binding]; other site 398578015300 homotetramer interface [polypeptide binding]; other site 398578015301 homodimer interface [polypeptide binding]; other site 398578015302 active site 398578015303 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 398578015304 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 398578015305 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 398578015306 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 398578015307 dimer interface [polypeptide binding]; other site 398578015308 active site 398578015309 CoA binding pocket [chemical binding]; other site 398578015310 putative phosphate acyltransferase; Provisional; Region: PRK05331 398578015311 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 398578015312 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 398578015313 Maf-like protein; Region: Maf; pfam02545 398578015314 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 398578015315 active site 398578015316 dimer interface [polypeptide binding]; other site 398578015317 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 398578015318 putative SAM binding site [chemical binding]; other site 398578015319 homodimer interface [polypeptide binding]; other site 398578015320 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 398578015321 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 398578015322 tandem repeat interface [polypeptide binding]; other site 398578015323 oligomer interface [polypeptide binding]; other site 398578015324 active site residues [active] 398578015325 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 398578015326 iron-sulfur cluster [ion binding]; other site 398578015327 [2Fe-2S] cluster binding site [ion binding]; other site 398578015328 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 398578015329 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 398578015330 motif II; other site 398578015331 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 398578015332 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 398578015333 RNA binding surface [nucleotide binding]; other site 398578015334 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 398578015335 active site 398578015336 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 398578015337 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 398578015338 homodimer interface [polypeptide binding]; other site 398578015339 oligonucleotide binding site [chemical binding]; other site 398578015340 hypothetical protein; Validated; Region: PRK02101 398578015341 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 398578015342 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 398578015343 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 398578015344 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 398578015345 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 398578015346 PAS domain; Region: PAS_9; pfam13426 398578015347 putative active site [active] 398578015348 heme pocket [chemical binding]; other site 398578015349 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398578015350 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578015351 dimer interface [polypeptide binding]; other site 398578015352 putative CheW interface [polypeptide binding]; other site 398578015353 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 398578015354 active site 398578015355 DNA polymerase IV; Validated; Region: PRK02406 398578015356 DNA binding site [nucleotide binding] 398578015357 Anti-sigma-K factor rskA; Region: RskA; pfam10099 398578015358 RNA polymerase sigma factor; Provisional; Region: PRK12514 398578015359 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398578015360 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 398578015361 DNA binding residues [nucleotide binding] 398578015362 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 398578015363 Cupin domain; Region: Cupin_2; cl17218 398578015364 Helix-turn-helix domain; Region: HTH_18; pfam12833 398578015365 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578015366 2-isopropylmalate synthase; Validated; Region: PRK03739 398578015367 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 398578015368 active site 398578015369 catalytic residues [active] 398578015370 metal binding site [ion binding]; metal-binding site 398578015371 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 398578015372 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 398578015373 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 398578015374 phosphate binding site [ion binding]; other site 398578015375 L-lactate permease; Region: Lactate_perm; cl00701 398578015376 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 398578015377 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398578015378 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 398578015379 putative DNA binding site [nucleotide binding]; other site 398578015380 putative Zn2+ binding site [ion binding]; other site 398578015381 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398578015382 Coenzyme A binding pocket [chemical binding]; other site 398578015383 Cupin domain; Region: Cupin_2; pfam07883 398578015384 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 398578015385 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578015386 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578015387 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 398578015388 Transglycosylase; Region: Transgly; pfam00912 398578015389 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 398578015390 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 398578015391 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 398578015392 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 398578015393 putative catalytic site [active] 398578015394 putative metal binding site [ion binding]; other site 398578015395 putative phosphate binding site [ion binding]; other site 398578015396 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 398578015397 active site 398578015398 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 398578015399 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 398578015400 dimer interface [polypeptide binding]; other site 398578015401 conserved gate region; other site 398578015402 putative PBP binding loops; other site 398578015403 ABC-ATPase subunit interface; other site 398578015404 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 398578015405 dimer interface [polypeptide binding]; other site 398578015406 conserved gate region; other site 398578015407 putative PBP binding loops; other site 398578015408 ABC-ATPase subunit interface; other site 398578015409 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 398578015410 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 398578015411 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 398578015412 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578015413 Walker A/P-loop; other site 398578015414 ATP binding site [chemical binding]; other site 398578015415 Q-loop/lid; other site 398578015416 ABC transporter signature motif; other site 398578015417 Walker B; other site 398578015418 D-loop; other site 398578015419 H-loop/switch region; other site 398578015420 TOBE domain; Region: TOBE_2; pfam08402 398578015421 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 398578015422 Amidase; Region: Amidase; pfam01425 398578015423 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 398578015424 Cupin domain; Region: Cupin_2; cl17218 398578015425 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578015426 BCCT family transporter; Region: BCCT; pfam02028 398578015427 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 398578015428 Bacterial Ig-like domain; Region: Big_5; pfam13205 398578015429 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 398578015430 MG2 domain; Region: A2M_N; pfam01835 398578015431 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 398578015432 Alpha-2-macroglobulin family; Region: A2M; pfam00207 398578015433 Rhomboid family; Region: Rhomboid; pfam01694 398578015434 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578015435 argininosuccinate lyase; Provisional; Region: PRK00855 398578015436 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 398578015437 active sites [active] 398578015438 tetramer interface [polypeptide binding]; other site 398578015439 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 398578015440 Histidine kinase; Region: His_kinase; pfam06580 398578015441 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 398578015442 ATP binding site [chemical binding]; other site 398578015443 Mg2+ binding site [ion binding]; other site 398578015444 G-X-G motif; other site 398578015445 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 398578015446 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 398578015447 active site 398578015448 phosphorylation site [posttranslational modification] 398578015449 intermolecular recognition site; other site 398578015450 dimerization interface [polypeptide binding]; other site 398578015451 LytTr DNA-binding domain; Region: LytTR; smart00850 398578015452 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 398578015453 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 398578015454 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398578015455 catalytic residue [active] 398578015456 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 398578015457 homotrimer interaction site [polypeptide binding]; other site 398578015458 putative active site [active] 398578015459 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 398578015460 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 398578015461 Histidine kinase; Region: HisKA_3; pfam07730 398578015462 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 398578015463 ATP binding site [chemical binding]; other site 398578015464 Mg2+ binding site [ion binding]; other site 398578015465 G-X-G motif; other site 398578015466 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398578015467 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 398578015468 active site 398578015469 phosphorylation site [posttranslational modification] 398578015470 intermolecular recognition site; other site 398578015471 dimerization interface [polypeptide binding]; other site 398578015472 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 398578015473 DNA binding residues [nucleotide binding] 398578015474 dimerization interface [polypeptide binding]; other site 398578015475 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 398578015476 Dienelactone hydrolase family; Region: DLH; pfam01738 398578015477 DNA polymerase I; Provisional; Region: PRK05755 398578015478 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 398578015479 active site 398578015480 metal binding site 1 [ion binding]; metal-binding site 398578015481 putative 5' ssDNA interaction site; other site 398578015482 metal binding site 3; metal-binding site 398578015483 metal binding site 2 [ion binding]; metal-binding site 398578015484 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 398578015485 putative DNA binding site [nucleotide binding]; other site 398578015486 putative metal binding site [ion binding]; other site 398578015487 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 398578015488 active site 398578015489 substrate binding site [chemical binding]; other site 398578015490 catalytic site [active] 398578015491 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 398578015492 active site 398578015493 DNA binding site [nucleotide binding] 398578015494 catalytic site [active] 398578015495 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 398578015496 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 398578015497 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 398578015498 putative active site [active] 398578015499 putative substrate binding site [chemical binding]; other site 398578015500 ATP binding site [chemical binding]; other site 398578015501 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 398578015502 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 398578015503 DNA helicase II; Region: uvrD; TIGR01075 398578015504 Part of AAA domain; Region: AAA_19; pfam13245 398578015505 Family description; Region: UvrD_C_2; pfam13538 398578015506 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 398578015507 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 398578015508 active site 398578015509 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 398578015510 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 398578015511 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 398578015512 putative substrate translocation pore; other site 398578015513 PAS domain; Region: PAS_9; pfam13426 398578015514 PAS domain; Region: PAS_9; pfam13426 398578015515 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578015516 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578015517 metal binding site [ion binding]; metal-binding site 398578015518 active site 398578015519 I-site; other site 398578015520 helicase 45; Provisional; Region: PTZ00424 398578015521 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 398578015522 ATP binding site [chemical binding]; other site 398578015523 Mg++ binding site [ion binding]; other site 398578015524 motif III; other site 398578015525 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 398578015526 nucleotide binding region [chemical binding]; other site 398578015527 ATP-binding site [chemical binding]; other site 398578015528 Peptidase family M48; Region: Peptidase_M48; pfam01435 398578015529 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; cd00488 398578015530 aromatic arch; other site 398578015531 DCoH dimer interaction site [polypeptide binding]; other site 398578015532 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 398578015533 DCoH tetramer interaction site [polypeptide binding]; other site 398578015534 substrate binding site [chemical binding]; other site 398578015535 GTPase RsgA; Reviewed; Region: PRK00098 398578015536 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 398578015537 RNA binding site [nucleotide binding]; other site 398578015538 homodimer interface [polypeptide binding]; other site 398578015539 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 398578015540 GTPase/Zn-binding domain interface [polypeptide binding]; other site 398578015541 GTP/Mg2+ binding site [chemical binding]; other site 398578015542 G4 box; other site 398578015543 G5 box; other site 398578015544 G1 box; other site 398578015545 Switch I region; other site 398578015546 G2 box; other site 398578015547 G3 box; other site 398578015548 Switch II region; other site 398578015549 CobD/Cbib protein; Region: CobD_Cbib; cl00561 398578015550 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 398578015551 putative active site [active] 398578015552 putative CoA binding site [chemical binding]; other site 398578015553 nudix motif; other site 398578015554 metal binding site [ion binding]; metal-binding site 398578015555 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 398578015556 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 398578015557 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 398578015558 RimM N-terminal domain; Region: RimM; pfam01782 398578015559 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 398578015560 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 398578015561 TM2 domain; Region: TM2; pfam05154 398578015562 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 398578015563 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 398578015564 Protein of unknown function, DUF486; Region: DUF486; pfam04342 398578015565 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398578015566 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 398578015567 Walker A/P-loop; other site 398578015568 ATP binding site [chemical binding]; other site 398578015569 Q-loop/lid; other site 398578015570 ABC transporter signature motif; other site 398578015571 Walker B; other site 398578015572 D-loop; other site 398578015573 H-loop/switch region; other site 398578015574 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398578015575 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 398578015576 Walker A/P-loop; other site 398578015577 ATP binding site [chemical binding]; other site 398578015578 Q-loop/lid; other site 398578015579 ABC transporter signature motif; other site 398578015580 Walker B; other site 398578015581 D-loop; other site 398578015582 H-loop/switch region; other site 398578015583 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 398578015584 TM-ABC transporter signature motif; other site 398578015585 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398578015586 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 398578015587 TM-ABC transporter signature motif; other site 398578015588 Uncharacterized conserved protein [Function unknown]; Region: COG3791 398578015589 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 398578015590 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 398578015591 putative catalytic residue [active] 398578015592 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 398578015593 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 398578015594 putative NAD(P) binding site [chemical binding]; other site 398578015595 active site 398578015596 Predicted transcriptional regulators [Transcription]; Region: COG1733 398578015597 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 398578015598 recombination factor protein RarA; Reviewed; Region: PRK13342 398578015599 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 398578015600 Walker A motif; other site 398578015601 ATP binding site [chemical binding]; other site 398578015602 Walker B motif; other site 398578015603 arginine finger; other site 398578015604 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 398578015605 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 398578015606 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 398578015607 dimerization interface [polypeptide binding]; other site 398578015608 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398578015609 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578015610 dimer interface [polypeptide binding]; other site 398578015611 putative CheW interface [polypeptide binding]; other site 398578015612 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 398578015613 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 398578015614 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 398578015615 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 398578015616 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 398578015617 thioredoxin reductase; Provisional; Region: PRK10262 398578015618 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398578015619 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398578015620 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 398578015621 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 398578015622 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 398578015623 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578015624 DNA-binding site [nucleotide binding]; DNA binding site 398578015625 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 398578015626 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578015627 homodimer interface [polypeptide binding]; other site 398578015628 catalytic residue [active] 398578015629 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 398578015630 Fatty acid desaturase; Region: FA_desaturase; pfam00487 398578015631 Di-iron ligands [ion binding]; other site 398578015632 Transposase; Region: DDE_Tnp_ISL3; pfam01610 398578015633 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 398578015634 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 398578015635 S-adenosylmethionine binding site [chemical binding]; other site 398578015636 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 398578015637 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 398578015638 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 398578015639 active site 398578015640 substrate binding site [chemical binding]; other site 398578015641 cosubstrate binding site; other site 398578015642 catalytic site [active] 398578015643 hypothetical protein; Provisional; Region: PRK11239 398578015644 Protein of unknown function, DUF480; Region: DUF480; pfam04337 398578015645 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 398578015646 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578015647 active site 398578015648 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 398578015649 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 398578015650 active site 398578015651 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 398578015652 IPTL-CTERM protein sorting domain; Region: IPTL_CTERM; TIGR04174 398578015653 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398578015654 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 398578015655 active site 398578015656 phosphorylation site [posttranslational modification] 398578015657 intermolecular recognition site; other site 398578015658 dimerization interface [polypeptide binding]; other site 398578015659 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 398578015660 DNA binding site [nucleotide binding] 398578015661 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 398578015662 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398578015663 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 398578015664 dimer interface [polypeptide binding]; other site 398578015665 phosphorylation site [posttranslational modification] 398578015666 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 398578015667 ATP binding site [chemical binding]; other site 398578015668 Mg2+ binding site [ion binding]; other site 398578015669 G-X-G motif; other site 398578015670 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 398578015671 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398578015672 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 398578015673 dimer interface [polypeptide binding]; other site 398578015674 phosphorylation site [posttranslational modification] 398578015675 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 398578015676 ATP binding site [chemical binding]; other site 398578015677 Mg2+ binding site [ion binding]; other site 398578015678 G-X-G motif; other site 398578015679 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 398578015680 binding surface 398578015681 TPR motif; other site 398578015682 TPR repeat; Region: TPR_11; pfam13414 398578015683 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 398578015684 binding surface 398578015685 TPR motif; other site 398578015686 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 398578015687 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 398578015688 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 398578015689 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 398578015690 active site 398578015691 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 398578015692 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 398578015693 active site 398578015694 Riboflavin kinase; Region: Flavokinase; smart00904 398578015695 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 398578015696 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398578015697 active site 398578015698 HIGH motif; other site 398578015699 nucleotide binding site [chemical binding]; other site 398578015700 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 398578015701 active site 398578015702 KMSKS motif; other site 398578015703 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 398578015704 tRNA binding surface [nucleotide binding]; other site 398578015705 anticodon binding site; other site 398578015706 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 398578015707 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 398578015708 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 398578015709 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 398578015710 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 398578015711 PhoU domain; Region: PhoU; pfam01895 398578015712 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 398578015713 nudix motif; other site 398578015714 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 398578015715 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 398578015716 NADP binding site [chemical binding]; other site 398578015717 dimer interface [polypeptide binding]; other site 398578015718 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 398578015719 EamA-like transporter family; Region: EamA; pfam00892 398578015720 EamA-like transporter family; Region: EamA; pfam00892 398578015721 PAS domain; Region: PAS; smart00091 398578015722 PAS fold; Region: PAS_7; pfam12860 398578015723 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398578015724 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578015725 metal binding site [ion binding]; metal-binding site 398578015726 active site 398578015727 I-site; other site 398578015728 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 398578015729 short chain dehydrogenase; Provisional; Region: PRK08339 398578015730 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 398578015731 putative NAD(P) binding site [chemical binding]; other site 398578015732 putative active site [active] 398578015733 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 398578015734 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 398578015735 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 398578015736 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 398578015737 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 398578015738 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 398578015739 Walker A motif; other site 398578015740 ATP binding site [chemical binding]; other site 398578015741 Walker B motif; other site 398578015742 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 398578015743 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 398578015744 putative active site [active] 398578015745 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 398578015746 active site 398578015747 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 398578015748 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398578015749 putative active site [active] 398578015750 heme pocket [chemical binding]; other site 398578015751 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 398578015752 putative active site [active] 398578015753 heme pocket [chemical binding]; other site 398578015754 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578015755 dimer interface [polypeptide binding]; other site 398578015756 putative CheW interface [polypeptide binding]; other site 398578015757 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 398578015758 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398578015759 Walker A/P-loop; other site 398578015760 ATP binding site [chemical binding]; other site 398578015761 Q-loop/lid; other site 398578015762 ABC transporter signature motif; other site 398578015763 Walker B; other site 398578015764 D-loop; other site 398578015765 H-loop/switch region; other site 398578015766 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 398578015767 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 398578015768 FtsX-like permease family; Region: FtsX; pfam02687 398578015769 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398578015770 MarR family; Region: MarR; pfam01047 398578015771 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578015772 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 398578015773 Sulfatase; Region: Sulfatase; pfam00884 398578015774 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 398578015775 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 398578015776 DHH family; Region: DHH; pfam01368 398578015777 DHHA1 domain; Region: DHHA1; pfam02272 398578015778 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 398578015779 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 398578015780 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 398578015781 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 398578015782 dimerization interface [polypeptide binding]; other site 398578015783 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398578015784 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578015785 dimer interface [polypeptide binding]; other site 398578015786 putative CheW interface [polypeptide binding]; other site 398578015787 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 398578015788 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 398578015789 active site 398578015790 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 398578015791 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 398578015792 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398578015793 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578015794 dimer interface [polypeptide binding]; other site 398578015795 putative CheW interface [polypeptide binding]; other site 398578015796 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 398578015797 Peptidase family M50; Region: Peptidase_M50; pfam02163 398578015798 active site 398578015799 putative substrate binding region [chemical binding]; other site 398578015800 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 398578015801 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 398578015802 active site 398578015803 HIGH motif; other site 398578015804 dimer interface [polypeptide binding]; other site 398578015805 KMSKS motif; other site 398578015806 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 398578015807 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398578015808 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 398578015809 active site 398578015810 phosphorylation site [posttranslational modification] 398578015811 intermolecular recognition site; other site 398578015812 dimerization interface [polypeptide binding]; other site 398578015813 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 398578015814 DNA binding site [nucleotide binding] 398578015815 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 398578015816 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398578015817 FecR protein; Region: FecR; pfam04773 398578015818 CHASE2 domain; Region: CHASE2; pfam05226 398578015819 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398578015820 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 398578015821 ATP binding site [chemical binding]; other site 398578015822 Mg2+ binding site [ion binding]; other site 398578015823 G-X-G motif; other site 398578015824 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 398578015825 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 398578015826 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 398578015827 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 398578015828 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 398578015829 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 398578015830 Walker A/P-loop; other site 398578015831 ATP binding site [chemical binding]; other site 398578015832 Q-loop/lid; other site 398578015833 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 398578015834 ABC transporter signature motif; other site 398578015835 Walker B; other site 398578015836 D-loop; other site 398578015837 H-loop/switch region; other site 398578015838 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 398578015839 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 398578015840 DNA-binding response regulator CreB; Provisional; Region: PRK11083 398578015841 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 398578015842 active site 398578015843 phosphorylation site [posttranslational modification] 398578015844 intermolecular recognition site; other site 398578015845 dimerization interface [polypeptide binding]; other site 398578015846 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 398578015847 DNA binding site [nucleotide binding] 398578015848 sensory histidine kinase CreC; Provisional; Region: PRK11100 398578015849 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 398578015850 dimer interface [polypeptide binding]; other site 398578015851 phosphorylation site [posttranslational modification] 398578015852 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 398578015853 ATP binding site [chemical binding]; other site 398578015854 G-X-G motif; other site 398578015855 Inner membrane protein CreD; Region: CreD; pfam06123 398578015856 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 398578015857 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 398578015858 minor groove reading motif; other site 398578015859 helix-hairpin-helix signature motif; other site 398578015860 substrate binding pocket [chemical binding]; other site 398578015861 active site 398578015862 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 398578015863 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 398578015864 DNA binding and oxoG recognition site [nucleotide binding] 398578015865 Dynamin family; Region: Dynamin_N; pfam00350 398578015866 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 398578015867 G1 box; other site 398578015868 GTP/Mg2+ binding site [chemical binding]; other site 398578015869 G2 box; other site 398578015870 Switch I region; other site 398578015871 G3 box; other site 398578015872 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 398578015873 G3 box; other site 398578015874 Switch II region; other site 398578015875 GTP/Mg2+ binding site [chemical binding]; other site 398578015876 G4 box; other site 398578015877 G5 box; other site 398578015878 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 398578015879 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 398578015880 DNA binding site [nucleotide binding] 398578015881 catalytic residue [active] 398578015882 H2TH interface [polypeptide binding]; other site 398578015883 putative catalytic residues [active] 398578015884 turnover-facilitating residue; other site 398578015885 intercalation triad [nucleotide binding]; other site 398578015886 8OG recognition residue [nucleotide binding]; other site 398578015887 putative reading head residues; other site 398578015888 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 398578015889 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 398578015890 TPR repeat; Region: TPR_11; pfam13414 398578015891 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 398578015892 binding surface 398578015893 TPR motif; other site 398578015894 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 398578015895 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 398578015896 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 398578015897 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 398578015898 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 398578015899 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 398578015900 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398578015901 active site 398578015902 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 398578015903 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 398578015904 5S rRNA interface [nucleotide binding]; other site 398578015905 CTC domain interface [polypeptide binding]; other site 398578015906 L16 interface [polypeptide binding]; other site 398578015907 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 398578015908 putative active site [active] 398578015909 catalytic residue [active] 398578015910 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 398578015911 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 398578015912 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 398578015913 dimer interface [polypeptide binding]; other site 398578015914 conserved gate region; other site 398578015915 putative PBP binding loops; other site 398578015916 ABC-ATPase subunit interface; other site 398578015917 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 398578015918 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 398578015919 dimer interface [polypeptide binding]; other site 398578015920 conserved gate region; other site 398578015921 putative PBP binding loops; other site 398578015922 ABC-ATPase subunit interface; other site 398578015923 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 398578015924 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398578015925 Walker A/P-loop; other site 398578015926 ATP binding site [chemical binding]; other site 398578015927 Q-loop/lid; other site 398578015928 ABC transporter signature motif; other site 398578015929 Walker B; other site 398578015930 D-loop; other site 398578015931 H-loop/switch region; other site 398578015932 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 398578015933 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 398578015934 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398578015935 Walker A/P-loop; other site 398578015936 ATP binding site [chemical binding]; other site 398578015937 Q-loop/lid; other site 398578015938 ABC transporter signature motif; other site 398578015939 Walker B; other site 398578015940 D-loop; other site 398578015941 H-loop/switch region; other site 398578015942 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398578015943 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 398578015944 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_6; cd08494 398578015945 amidase; Provisional; Region: PRK07042 398578015946 Amidase; Region: Amidase; cl11426 398578015947 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578015948 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 398578015949 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398578015950 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578015951 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398578015952 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 398578015953 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398578015954 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 398578015955 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 398578015956 active site 398578015957 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 398578015958 putative catalytic site [active] 398578015959 putative metal binding site [ion binding]; other site 398578015960 putative phosphate binding site [ion binding]; other site 398578015961 dihydroneopterin triphosphate pyrophosphatase; Provisional; Region: nudB; PRK09438 398578015962 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 398578015963 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 398578015964 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 398578015965 dimer interface [polypeptide binding]; other site 398578015966 anticodon binding site; other site 398578015967 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 398578015968 homodimer interface [polypeptide binding]; other site 398578015969 motif 1; other site 398578015970 active site 398578015971 motif 2; other site 398578015972 GAD domain; Region: GAD; pfam02938 398578015973 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 398578015974 motif 3; other site 398578015975 Uncharacterized conserved protein [Function unknown]; Region: COG2928 398578015976 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 398578015977 Na(+)- and Cl(-)-dependent choline cotransporter CHT and related proteins; solute-binding domain; Region: SLC5sbd_CHT; cd11474 398578015978 Na binding site [ion binding]; other site 398578015979 putative glycosylation site [posttranslational modification]; other site 398578015980 putative glycosylation site [posttranslational modification]; other site 398578015981 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 398578015982 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 398578015983 SCP-2 sterol transfer family; Region: SCP2; pfam02036 398578015984 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 398578015985 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 398578015986 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 398578015987 S-adenosylmethionine binding site [chemical binding]; other site 398578015988 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 398578015989 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 398578015990 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 398578015991 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398578015992 FAD binding domain; Region: FAD_binding_4; pfam01565 398578015993 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398578015994 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 398578015995 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 398578015996 Cysteine-rich domain; Region: CCG; pfam02754 398578015997 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 398578015998 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 398578015999 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 398578016000 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 398578016001 dimer interface [polypeptide binding]; other site 398578016002 conserved gate region; other site 398578016003 putative PBP binding loops; other site 398578016004 ABC-ATPase subunit interface; other site 398578016005 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 398578016006 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 398578016007 dimer interface [polypeptide binding]; other site 398578016008 conserved gate region; other site 398578016009 putative PBP binding loops; other site 398578016010 ABC-ATPase subunit interface; other site 398578016011 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 398578016012 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 398578016013 Walker A/P-loop; other site 398578016014 ATP binding site [chemical binding]; other site 398578016015 Q-loop/lid; other site 398578016016 ABC transporter signature motif; other site 398578016017 Walker B; other site 398578016018 D-loop; other site 398578016019 H-loop/switch region; other site 398578016020 TOBE domain; Region: TOBE_2; pfam08402 398578016021 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 398578016022 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 398578016023 putative active site [active] 398578016024 catalytic site [active] 398578016025 putative metal binding site [ion binding]; other site 398578016026 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 398578016027 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 398578016028 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398578016029 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 398578016030 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 398578016031 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398578016032 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578016033 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 398578016034 dimerization interface [polypeptide binding]; other site 398578016035 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 398578016036 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 398578016037 tRNA; other site 398578016038 putative tRNA binding site [nucleotide binding]; other site 398578016039 putative NADP binding site [chemical binding]; other site 398578016040 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 398578016041 peptide chain release factor 1; Validated; Region: prfA; PRK00591 398578016042 This domain is found in peptide chain release factors; Region: PCRF; smart00937 398578016043 RF-1 domain; Region: RF-1; pfam00472 398578016044 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 398578016045 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 398578016046 S-adenosylmethionine binding site [chemical binding]; other site 398578016047 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 398578016048 putative GSH binding site [chemical binding]; other site 398578016049 catalytic residues [active] 398578016050 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 398578016051 Domain of unknown function DUF21; Region: DUF21; pfam01595 398578016052 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 398578016053 Transporter associated domain; Region: CorC_HlyC; smart01091 398578016054 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 398578016055 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 398578016056 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398578016057 catalytic residue [active] 398578016058 prolyl-tRNA synthetase; Provisional; Region: PRK09194 398578016059 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 398578016060 dimer interface [polypeptide binding]; other site 398578016061 motif 1; other site 398578016062 active site 398578016063 motif 2; other site 398578016064 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 398578016065 putative deacylase active site [active] 398578016066 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 398578016067 active site 398578016068 motif 3; other site 398578016069 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 398578016070 anticodon binding site; other site 398578016071 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 398578016072 putative active site [active] 398578016073 Ap4A binding site [chemical binding]; other site 398578016074 nudix motif; other site 398578016075 putative metal binding site [ion binding]; other site 398578016076 gamma-glutamyl kinase; Provisional; Region: PRK05429 398578016077 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 398578016078 nucleotide binding site [chemical binding]; other site 398578016079 homotetrameric interface [polypeptide binding]; other site 398578016080 putative phosphate binding site [ion binding]; other site 398578016081 putative allosteric binding site; other site 398578016082 PUA domain; Region: PUA; pfam01472 398578016083 GTPase CgtA; Reviewed; Region: obgE; PRK12299 398578016084 GTP1/OBG; Region: GTP1_OBG; pfam01018 398578016085 Obg GTPase; Region: Obg; cd01898 398578016086 G1 box; other site 398578016087 GTP/Mg2+ binding site [chemical binding]; other site 398578016088 Switch I region; other site 398578016089 G2 box; other site 398578016090 G3 box; other site 398578016091 Switch II region; other site 398578016092 G4 box; other site 398578016093 G5 box; other site 398578016094 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 398578016095 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 398578016096 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 398578016097 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 398578016098 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 398578016099 substrate binding pocket [chemical binding]; other site 398578016100 chain length determination region; other site 398578016101 substrate-Mg2+ binding site; other site 398578016102 catalytic residues [active] 398578016103 aspartate-rich region 1; other site 398578016104 active site lid residues [active] 398578016105 aspartate-rich region 2; other site 398578016106 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 398578016107 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 398578016108 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 398578016109 Walker A motif; other site 398578016110 ATP binding site [chemical binding]; other site 398578016111 Walker B motif; other site 398578016112 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 398578016113 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398578016114 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398578016115 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 398578016116 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 398578016117 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 398578016118 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 398578016119 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 398578016120 CoA-binding site [chemical binding]; other site 398578016121 ATP-binding [chemical binding]; other site 398578016122 hypothetical protein; Provisional; Region: PRK05287 398578016123 Domain of unknown function (DUF329); Region: DUF329; pfam03884 398578016124 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 398578016125 active site 398578016126 8-oxo-dGMP binding site [chemical binding]; other site 398578016127 nudix motif; other site 398578016128 metal binding site [ion binding]; metal-binding site 398578016129 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 398578016130 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 398578016131 AAA domain; Region: AAA_14; pfam13173 398578016132 Walker A motif; other site 398578016133 ATP binding site [chemical binding]; other site 398578016134 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 398578016135 heterotetramer interface [polypeptide binding]; other site 398578016136 active site pocket [active] 398578016137 cleavage site 398578016138 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 398578016139 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 398578016140 SEC-C motif; Region: SEC-C; pfam02810 398578016141 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 398578016142 stringent starvation protein A; Provisional; Region: sspA; PRK09481 398578016143 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 398578016144 C-terminal domain interface [polypeptide binding]; other site 398578016145 putative GSH binding site (G-site) [chemical binding]; other site 398578016146 dimer interface [polypeptide binding]; other site 398578016147 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 398578016148 dimer interface [polypeptide binding]; other site 398578016149 N-terminal domain interface [polypeptide binding]; other site 398578016150 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 398578016151 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 398578016152 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 398578016153 Qi binding site; other site 398578016154 intrachain domain interface; other site 398578016155 interchain domain interface [polypeptide binding]; other site 398578016156 heme bH binding site [chemical binding]; other site 398578016157 heme bL binding site [chemical binding]; other site 398578016158 Qo binding site; other site 398578016159 interchain domain interface [polypeptide binding]; other site 398578016160 intrachain domain interface; other site 398578016161 Qi binding site; other site 398578016162 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 398578016163 Qo binding site; other site 398578016164 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 398578016165 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 398578016166 [2Fe-2S] cluster binding site [ion binding]; other site 398578016167 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 398578016168 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 398578016169 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 398578016170 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 398578016171 Uncharacterized conserved protein [Function unknown]; Region: COG0327 398578016172 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 398578016173 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 398578016174 metabolite-proton symporter; Region: 2A0106; TIGR00883 398578016175 putative substrate translocation pore; other site 398578016176 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 398578016177 Sel1 repeat; Region: Sel1; cl02723 398578016178 RHS Repeat; Region: RHS_repeat; pfam05593 398578016179 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 398578016180 RHS Repeat; Region: RHS_repeat; cl11982 398578016181 RHS Repeat; Region: RHS_repeat; pfam05593 398578016182 RHS Repeat; Region: RHS_repeat; cl11982 398578016183 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 398578016184 RHS Repeat; Region: RHS_repeat; pfam05593 398578016185 RHS Repeat; Region: RHS_repeat; cl11982 398578016186 RHS Repeat; Region: RHS_repeat; pfam05593 398578016187 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 398578016188 Protein of unknown function (DUF3438); Region: DUF3438; cl13372 398578016189 S-layer domain [Cell envelope biogenesis, outer membrane]; Region: COG1361 398578016190 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 398578016191 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 398578016192 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 398578016193 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 398578016194 protein binding site [polypeptide binding]; other site 398578016195 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 398578016196 active site 398578016197 phosphate binding residues; other site 398578016198 catalytic residues [active] 398578016199 Spherulation-specific family 4; Region: Spherulin4; pfam12138 398578016200 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 398578016201 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 398578016202 catalytic residues [active] 398578016203 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 398578016204 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 398578016205 putative active site [active] 398578016206 oxyanion strand; other site 398578016207 catalytic triad [active] 398578016208 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 398578016209 putative active site pocket [active] 398578016210 4-fold oligomerization interface [polypeptide binding]; other site 398578016211 metal binding residues [ion binding]; metal-binding site 398578016212 3-fold/trimer interface [polypeptide binding]; other site 398578016213 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 398578016214 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 398578016215 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578016216 homodimer interface [polypeptide binding]; other site 398578016217 catalytic residue [active] 398578016218 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 398578016219 putative active site [active] 398578016220 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 398578016221 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 398578016222 NAD binding site [chemical binding]; other site 398578016223 dimerization interface [polypeptide binding]; other site 398578016224 product binding site; other site 398578016225 substrate binding site [chemical binding]; other site 398578016226 zinc binding site [ion binding]; other site 398578016227 catalytic residues [active] 398578016228 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 398578016229 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 398578016230 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 398578016231 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 398578016232 hinge; other site 398578016233 active site 398578016234 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 398578016235 ABC-2 type transporter; Region: ABC2_membrane; cl17235 398578016236 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 398578016237 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 398578016238 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398578016239 Walker A/P-loop; other site 398578016240 ATP binding site [chemical binding]; other site 398578016241 Q-loop/lid; other site 398578016242 ABC transporter signature motif; other site 398578016243 Walker B; other site 398578016244 D-loop; other site 398578016245 H-loop/switch region; other site 398578016246 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 398578016247 anti sigma factor interaction site; other site 398578016248 regulatory phosphorylation site [posttranslational modification]; other site 398578016249 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 398578016250 VacJ like lipoprotein; Region: VacJ; cl01073 398578016251 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 398578016252 mce related protein; Region: MCE; pfam02470 398578016253 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 398578016254 Permease; Region: Permease; pfam02405 398578016255 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 398578016256 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 398578016257 Walker A/P-loop; other site 398578016258 ATP binding site [chemical binding]; other site 398578016259 Q-loop/lid; other site 398578016260 ABC transporter signature motif; other site 398578016261 Walker B; other site 398578016262 D-loop; other site 398578016263 H-loop/switch region; other site 398578016264 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398578016265 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 398578016266 Walker A/P-loop; other site 398578016267 ATP binding site [chemical binding]; other site 398578016268 Q-loop/lid; other site 398578016269 ABC transporter signature motif; other site 398578016270 Walker B; other site 398578016271 D-loop; other site 398578016272 H-loop/switch region; other site 398578016273 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398578016274 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 398578016275 dimer interface [polypeptide binding]; other site 398578016276 conserved gate region; other site 398578016277 putative PBP binding loops; other site 398578016278 ABC-ATPase subunit interface; other site 398578016279 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398578016280 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 398578016281 substrate binding pocket [chemical binding]; other site 398578016282 membrane-bound complex binding site; other site 398578016283 hinge residues; other site 398578016284 Predicted membrane protein [Function unknown]; Region: COG4267 398578016285 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_3; cd03813 398578016286 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398578016287 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 398578016288 Tetratricopeptide repeat; Region: TPR_15; pfam13429 398578016289 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 398578016290 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 398578016291 putative active site [active] 398578016292 UDP-glucose 4-epimerase; Region: PLN02240 398578016293 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 398578016294 NAD binding site [chemical binding]; other site 398578016295 homodimer interface [polypeptide binding]; other site 398578016296 active site 398578016297 substrate binding site [chemical binding]; other site 398578016298 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 398578016299 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 398578016300 substrate binding site [chemical binding]; other site 398578016301 glutamase interaction surface [polypeptide binding]; other site 398578016302 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 398578016303 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 398578016304 metal binding site [ion binding]; metal-binding site 398578016305 Predicted membrane protein [Function unknown]; Region: COG3671 398578016306 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 398578016307 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 398578016308 active site 398578016309 nucleophile elbow; other site 398578016310 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 398578016311 nucleotide binding site/active site [active] 398578016312 HIT family signature motif; other site 398578016313 catalytic residue [active] 398578016314 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 398578016315 twin arginine translocase protein A; Provisional; Region: tatA; PRK00442 398578016316 sec-independent translocase; Provisional; Region: tatB; PRK01919 398578016317 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 398578016318 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 398578016319 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398578016320 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 398578016321 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 398578016322 active site 398578016323 dimer interface [polypeptide binding]; other site 398578016324 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 398578016325 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 398578016326 active site 398578016327 FMN binding site [chemical binding]; other site 398578016328 substrate binding site [chemical binding]; other site 398578016329 3Fe-4S cluster binding site [ion binding]; other site 398578016330 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 398578016331 domain interface; other site 398578016332 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 398578016333 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 398578016334 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398578016335 Bacterial transcriptional regulator; Region: IclR; pfam01614 398578016336 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 398578016337 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 398578016338 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 398578016339 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 398578016340 dimer interface [polypeptide binding]; other site 398578016341 active site 398578016342 classical (c) SDRs; Region: SDR_c; cd05233 398578016343 short chain dehydrogenase; Provisional; Region: PRK07577 398578016344 NAD(P) binding site [chemical binding]; other site 398578016345 active site 398578016346 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578016347 Alkaline phosphatase homologues; Region: alkPPc; smart00098 398578016348 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 398578016349 active site 398578016350 dimer interface [polypeptide binding]; other site 398578016351 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 398578016352 Alkaline phosphatase homologues; Region: alkPPc; smart00098 398578016353 active site 398578016354 dimer interface [polypeptide binding]; other site 398578016355 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 398578016356 PQQ-like domain; Region: PQQ_2; pfam13360 398578016357 Methyltransferase domain; Region: Methyltransf_32; pfam13679 398578016358 Methyltransferase domain; Region: Methyltransf_31; pfam13847 398578016359 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 398578016360 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 398578016361 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398578016362 Zn2+ binding site [ion binding]; other site 398578016363 Mg2+ binding site [ion binding]; other site 398578016364 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 398578016365 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 398578016366 active site 398578016367 dimer interface [polypeptide binding]; other site 398578016368 metal binding site [ion binding]; metal-binding site 398578016369 shikimate kinase; Reviewed; Region: aroK; PRK00131 398578016370 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 398578016371 ADP binding site [chemical binding]; other site 398578016372 magnesium binding site [ion binding]; other site 398578016373 putative shikimate binding site; other site 398578016374 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 398578016375 AMIN domain; Region: AMIN; pfam11741 398578016376 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 398578016377 Secretin and TonB N terminus short domain; Region: STN; pfam07660 398578016378 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398578016379 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398578016380 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 398578016381 Pilus assembly protein, PilP; Region: PilP; pfam04351 398578016382 Pilus assembly protein, PilO; Region: PilO; pfam04350 398578016383 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 398578016384 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 398578016385 Competence protein A; Region: Competence_A; pfam11104 398578016386 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 398578016387 Transglycosylase; Region: Transgly; pfam00912 398578016388 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 398578016389 Frataxin-like domain; Region: Frataxin_Cyay; pfam01491 398578016390 putative iron binding site [ion binding]; other site 398578016391 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 398578016392 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 398578016393 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 398578016394 TMAO/DMSO reductase; Reviewed; Region: PRK05363 398578016395 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 398578016396 Moco binding site; other site 398578016397 metal coordination site [ion binding]; other site 398578016398 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 398578016399 ResB-like family; Region: ResB; pfam05140 398578016400 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 398578016401 ResB-like family; Region: ResB; pfam05140 398578016402 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 398578016403 Cytochrome c553 [Energy production and conversion]; Region: COG2863 398578016404 Cytochrome c; Region: Cytochrom_C; cl11414 398578016405 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 398578016406 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398578016407 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578016408 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 398578016409 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398578016410 putative substrate binding site [chemical binding]; other site 398578016411 putative ATP binding site [chemical binding]; other site 398578016412 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 398578016413 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 398578016414 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 398578016415 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 398578016416 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 398578016417 Walker A/P-loop; other site 398578016418 ATP binding site [chemical binding]; other site 398578016419 Q-loop/lid; other site 398578016420 ABC transporter signature motif; other site 398578016421 Walker B; other site 398578016422 D-loop; other site 398578016423 H-loop/switch region; other site 398578016424 TOBE domain; Region: TOBE_2; pfam08402 398578016425 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 398578016426 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 398578016427 dimer interface [polypeptide binding]; other site 398578016428 conserved gate region; other site 398578016429 putative PBP binding loops; other site 398578016430 ABC-ATPase subunit interface; other site 398578016431 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 398578016432 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 398578016433 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 398578016434 dimer interface [polypeptide binding]; other site 398578016435 conserved gate region; other site 398578016436 putative PBP binding loops; other site 398578016437 ABC-ATPase subunit interface; other site 398578016438 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 398578016439 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 398578016440 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 398578016441 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 398578016442 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 398578016443 active site 398578016444 dimer interface [polypeptide binding]; other site 398578016445 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 398578016446 dimer interface [polypeptide binding]; other site 398578016447 active site 398578016448 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 398578016449 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 398578016450 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 398578016451 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 398578016452 G1 box; other site 398578016453 GTP/Mg2+ binding site [chemical binding]; other site 398578016454 Switch I region; other site 398578016455 G2 box; other site 398578016456 G3 box; other site 398578016457 Switch II region; other site 398578016458 G4 box; other site 398578016459 G5 box; other site 398578016460 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398578016461 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398578016462 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 398578016463 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 398578016464 putative acyl-acceptor binding pocket; other site 398578016465 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 398578016466 putative acyl-acceptor binding pocket; other site 398578016467 S-adenosylmethionine synthetase; Validated; Region: PRK05250 398578016468 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 398578016469 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 398578016470 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 398578016471 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 398578016472 catalytic triad [active] 398578016473 conserved cis-peptide bond; other site 398578016474 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 398578016475 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 398578016476 active site 398578016477 NAD synthetase; Provisional; Region: PRK13981 398578016478 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 398578016479 multimer interface [polypeptide binding]; other site 398578016480 active site 398578016481 catalytic triad [active] 398578016482 protein interface 1 [polypeptide binding]; other site 398578016483 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 398578016484 homodimer interface [polypeptide binding]; other site 398578016485 NAD binding pocket [chemical binding]; other site 398578016486 ATP binding pocket [chemical binding]; other site 398578016487 Mg binding site [ion binding]; other site 398578016488 active-site loop [active] 398578016489 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 398578016490 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398578016491 active site 398578016492 nucleotide binding site [chemical binding]; other site 398578016493 HIGH motif; other site 398578016494 KMSKS motif; other site 398578016495 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 398578016496 nudix motif; other site 398578016497 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398578016498 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 398578016499 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578016500 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 398578016501 substrate binding site [chemical binding]; other site 398578016502 dimerization interface [polypeptide binding]; other site 398578016503 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398578016504 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 398578016505 active site 398578016506 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 398578016507 dimer interface [polypeptide binding]; other site 398578016508 conserved gate region; other site 398578016509 ABC-ATPase subunit interface; other site 398578016510 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 398578016511 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398578016512 Walker A/P-loop; other site 398578016513 ATP binding site [chemical binding]; other site 398578016514 Q-loop/lid; other site 398578016515 ABC transporter signature motif; other site 398578016516 Walker B; other site 398578016517 D-loop; other site 398578016518 H-loop/switch region; other site 398578016519 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 398578016520 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 398578016521 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 398578016522 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 398578016523 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 398578016524 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 398578016525 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 398578016526 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398578016527 catalytic residue [active] 398578016528 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 398578016529 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 398578016530 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 398578016531 ABC-ATPase subunit interface; other site 398578016532 putative PBP binding loops; other site 398578016533 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 398578016534 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 398578016535 Walker A/P-loop; other site 398578016536 ATP binding site [chemical binding]; other site 398578016537 Q-loop/lid; other site 398578016538 ABC transporter signature motif; other site 398578016539 Walker B; other site 398578016540 D-loop; other site 398578016541 H-loop/switch region; other site 398578016542 Cytochrome c; Region: Cytochrom_C; pfam00034 398578016543 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 398578016544 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 398578016545 catalytic loop [active] 398578016546 iron binding site [ion binding]; other site 398578016547 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398578016548 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 398578016549 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 398578016550 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398578016551 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398578016552 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578016553 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578016554 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 398578016555 putative effector binding pocket; other site 398578016556 dimerization interface [polypeptide binding]; other site 398578016557 EamA-like transporter family; Region: EamA; pfam00892 398578016558 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578016559 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578016560 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 398578016561 putative effector binding pocket; other site 398578016562 dimerization interface [polypeptide binding]; other site 398578016563 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 398578016564 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 398578016565 NADP binding site [chemical binding]; other site 398578016566 dimer interface [polypeptide binding]; other site 398578016567 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 398578016568 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398578016569 eyelet of channel; other site 398578016570 trimer interface [polypeptide binding]; other site 398578016571 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578016572 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 398578016573 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 398578016574 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 398578016575 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 398578016576 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 398578016577 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 398578016578 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 398578016579 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 398578016580 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 398578016581 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 398578016582 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578016583 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578016584 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 398578016585 dimerization interface [polypeptide binding]; other site 398578016586 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 398578016587 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 398578016588 putative ligand binding site [chemical binding]; other site 398578016589 NAD binding site [chemical binding]; other site 398578016590 dimerization interface [polypeptide binding]; other site 398578016591 catalytic site [active] 398578016592 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 398578016593 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398578016594 putative metal binding site [ion binding]; other site 398578016595 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578016596 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578016597 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 398578016598 dimerization interface [polypeptide binding]; other site 398578016599 transcriptional regulator; Provisional; Region: PRK10632 398578016600 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578016601 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 398578016602 putative effector binding pocket; other site 398578016603 dimerization interface [polypeptide binding]; other site 398578016604 short chain dehydrogenase; Provisional; Region: PRK06500 398578016605 classical (c) SDRs; Region: SDR_c; cd05233 398578016606 NAD(P) binding site [chemical binding]; other site 398578016607 active site 398578016608 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398578016609 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 398578016610 C-terminal domain interface [polypeptide binding]; other site 398578016611 GSH binding site (G-site) [chemical binding]; other site 398578016612 dimer interface [polypeptide binding]; other site 398578016613 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 398578016614 N-terminal domain interface [polypeptide binding]; other site 398578016615 dimer interface [polypeptide binding]; other site 398578016616 substrate binding pocket (H-site) [chemical binding]; other site 398578016617 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398578016618 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578016619 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 398578016620 dimerization interface [polypeptide binding]; other site 398578016621 Ribulose bisphosphate carboxylase like proteins from nonphototrophic bacteria; Region: RLP_NonPhot; cd08207 398578016622 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 398578016623 dimer interface [polypeptide binding]; other site 398578016624 active site 398578016625 catalytic residue [active] 398578016626 metal binding site [ion binding]; metal-binding site 398578016627 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 398578016628 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 398578016629 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 398578016630 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 398578016631 DctM-like transporters; Region: DctM; pfam06808 398578016632 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 398578016633 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398578016634 classical (c) SDRs; Region: SDR_c; cd05233 398578016635 NAD(P) binding site [chemical binding]; other site 398578016636 active site 398578016637 hypothetical protein; Reviewed; Region: PRK09588 398578016638 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 398578016639 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 398578016640 GAF domain; Region: GAF; pfam01590 398578016641 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 398578016642 Walker A motif; other site 398578016643 ATP binding site [chemical binding]; other site 398578016644 Walker B motif; other site 398578016645 arginine finger; other site 398578016646 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398578016647 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 398578016648 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398578016649 NAD(P) binding site [chemical binding]; other site 398578016650 catalytic residues [active] 398578016651 Protein of unknown function (DUF779); Region: DUF779; pfam05610 398578016652 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 398578016653 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 398578016654 catalytic triad [active] 398578016655 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398578016656 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398578016657 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398578016658 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578016659 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578016660 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578016661 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398578016662 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398578016663 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 398578016664 SnoaL-like domain; Region: SnoaL_2; pfam12680 398578016665 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578016666 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578016667 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 398578016668 oligomerisation interface [polypeptide binding]; other site 398578016669 mobile loop; other site 398578016670 roof hairpin; other site 398578016671 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 398578016672 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 398578016673 ring oligomerisation interface [polypeptide binding]; other site 398578016674 ATP/Mg binding site [chemical binding]; other site 398578016675 stacking interactions; other site 398578016676 hinge regions; other site 398578016677 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 398578016678 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 398578016679 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578016680 homodimer interface [polypeptide binding]; other site 398578016681 catalytic residue [active] 398578016682 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 398578016683 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 398578016684 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398578016685 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578016686 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 398578016687 dimerization interface [polypeptide binding]; other site 398578016688 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 398578016689 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 398578016690 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 398578016691 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 398578016692 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 398578016693 active site 398578016694 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 398578016695 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398578016696 Walker A/P-loop; other site 398578016697 ATP binding site [chemical binding]; other site 398578016698 Q-loop/lid; other site 398578016699 ABC transporter signature motif; other site 398578016700 Walker B; other site 398578016701 D-loop; other site 398578016702 H-loop/switch region; other site 398578016703 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398578016704 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 398578016705 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398578016706 Walker A/P-loop; other site 398578016707 ATP binding site [chemical binding]; other site 398578016708 Q-loop/lid; other site 398578016709 ABC transporter signature motif; other site 398578016710 Walker B; other site 398578016711 D-loop; other site 398578016712 H-loop/switch region; other site 398578016713 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398578016714 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 398578016715 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 398578016716 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 398578016717 dimer interface [polypeptide binding]; other site 398578016718 conserved gate region; other site 398578016719 putative PBP binding loops; other site 398578016720 ABC-ATPase subunit interface; other site 398578016721 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 398578016722 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 398578016723 dimer interface [polypeptide binding]; other site 398578016724 conserved gate region; other site 398578016725 putative PBP binding loops; other site 398578016726 ABC-ATPase subunit interface; other site 398578016727 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 398578016728 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 398578016729 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 398578016730 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578016731 DNA-binding site [nucleotide binding]; DNA binding site 398578016732 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 398578016733 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578016734 homodimer interface [polypeptide binding]; other site 398578016735 catalytic residue [active] 398578016736 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 398578016737 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398578016738 substrate binding pocket [chemical binding]; other site 398578016739 membrane-bound complex binding site; other site 398578016740 hinge residues; other site 398578016741 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 398578016742 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 398578016743 active site 398578016744 dimer interface [polypeptide binding]; other site 398578016745 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 398578016746 dimer interface [polypeptide binding]; other site 398578016747 active site 398578016748 transaldolase-like protein; Provisional; Region: PTZ00411 398578016749 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 398578016750 active site 398578016751 dimer interface [polypeptide binding]; other site 398578016752 catalytic residue [active] 398578016753 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 398578016754 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 398578016755 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 398578016756 putative active site [active] 398578016757 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 398578016758 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 398578016759 dimer interface [polypeptide binding]; other site 398578016760 active site 398578016761 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578016762 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578016763 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 398578016764 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 398578016765 metal binding site [ion binding]; metal-binding site 398578016766 putative dimer interface [polypeptide binding]; other site 398578016767 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398578016768 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 398578016769 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398578016770 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 398578016771 trimer interface [polypeptide binding]; other site 398578016772 eyelet of channel; other site 398578016773 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398578016774 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 398578016775 trimer interface [polypeptide binding]; other site 398578016776 eyelet of channel; other site 398578016777 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 398578016778 dinuclear metal binding motif [ion binding]; other site 398578016779 OsmC-like protein; Region: OsmC; cl00767 398578016780 threonine dehydratase; Reviewed; Region: PRK09224 398578016781 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 398578016782 tetramer interface [polypeptide binding]; other site 398578016783 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578016784 catalytic residue [active] 398578016785 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 398578016786 putative Ile/Val binding site [chemical binding]; other site 398578016787 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 398578016788 putative Ile/Val binding site [chemical binding]; other site 398578016789 cobalamin synthase; Reviewed; Region: cobS; PRK00235 398578016790 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 398578016791 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 398578016792 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 398578016793 type II secretion system protein I; Region: gspI; TIGR01707 398578016794 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 398578016795 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 398578016796 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 398578016797 GspL periplasmic domain; Region: GspL_C; cl14909 398578016798 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398578016799 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398578016800 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398578016801 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 398578016802 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398578016803 type II secretion system protein E; Region: type_II_gspE; TIGR02533 398578016804 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 398578016805 Walker A motif; other site 398578016806 ATP binding site [chemical binding]; other site 398578016807 Walker B motif; other site 398578016808 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 398578016809 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 398578016810 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 398578016811 Predicted transcriptional regulator [Transcription]; Region: COG2378 398578016812 HTH domain; Region: HTH_11; pfam08279 398578016813 WYL domain; Region: WYL; pfam13280 398578016814 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 398578016815 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398578016816 putative C-terminal domain interface [polypeptide binding]; other site 398578016817 putative GSH binding site (G-site) [chemical binding]; other site 398578016818 putative dimer interface [polypeptide binding]; other site 398578016819 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 398578016820 dimer interface [polypeptide binding]; other site 398578016821 N-terminal domain interface [polypeptide binding]; other site 398578016822 putative substrate binding pocket (H-site) [chemical binding]; other site 398578016823 type II secretion system protein F; Region: GspF; TIGR02120 398578016824 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398578016825 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398578016826 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 398578016827 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 398578016828 EF-hand domain pair; Region: EF_hand_5; pfam13499 398578016829 Ca2+ binding site [ion binding]; other site 398578016830 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 398578016831 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 398578016832 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398578016833 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 398578016834 Walker A/P-loop; other site 398578016835 ATP binding site [chemical binding]; other site 398578016836 Q-loop/lid; other site 398578016837 ABC transporter signature motif; other site 398578016838 Walker B; other site 398578016839 D-loop; other site 398578016840 H-loop/switch region; other site 398578016841 cyanophycin synthetase; Provisional; Region: PRK14016 398578016842 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 398578016843 cyanophycin synthetase; Provisional; Region: PRK14016 398578016844 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 398578016845 ATP-grasp domain; Region: ATP-grasp_4; cl17255 398578016846 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398578016847 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398578016848 CreA protein; Region: CreA; pfam05981 398578016849 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 398578016850 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 398578016851 putative dimerization interface [polypeptide binding]; other site 398578016852 Conserved hypothetical protein 698; Region: Cons_hypoth698; pfam03601 398578016853 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398578016854 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 398578016855 Fusaric acid resistance protein family; Region: FUSC; pfam04632 398578016856 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398578016857 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398578016858 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 398578016859 tetramerization interface [polypeptide binding]; other site 398578016860 NAD(P) binding site [chemical binding]; other site 398578016861 catalytic residues [active] 398578016862 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 398578016863 nucleotide binding site [chemical binding]; other site 398578016864 putative NEF/HSP70 interaction site [polypeptide binding]; other site 398578016865 SBD interface [polypeptide binding]; other site 398578016866 DNA-K related protein; Region: DUF3731; pfam12531 398578016867 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 398578016868 nucleotide binding site [chemical binding]; other site 398578016869 putative NEF/HSP70 interaction site [polypeptide binding]; other site 398578016870 SBD interface [polypeptide binding]; other site 398578016871 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 398578016872 Protein of unknown function (DUF342); Region: DUF342; pfam03961 398578016873 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 398578016874 Lumazine binding domain; Region: Lum_binding; pfam00677 398578016875 Lumazine binding domain; Region: Lum_binding; pfam00677 398578016876 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 398578016877 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 398578016878 metal-binding site [ion binding] 398578016879 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 398578016880 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 398578016881 metal-binding site [ion binding] 398578016882 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398578016883 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 398578016884 motif II; other site 398578016885 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 398578016886 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 398578016887 active site 398578016888 metal binding site [ion binding]; metal-binding site 398578016889 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 398578016890 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 398578016891 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398578016892 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 398578016893 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 398578016894 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 398578016895 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 398578016896 carboxyltransferase (CT) interaction site; other site 398578016897 biotinylation site [posttranslational modification]; other site 398578016898 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 398578016899 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 398578016900 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 398578016901 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 398578016902 putative active site [active] 398578016903 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 398578016904 putative substrate binding pocket [chemical binding]; other site 398578016905 AC domain interface; other site 398578016906 catalytic triad [active] 398578016907 AB domain interface; other site 398578016908 interchain disulfide; other site 398578016909 Predicted membrane protein [Function unknown]; Region: COG3817 398578016910 Protein of unknown function (DUF979); Region: DUF979; pfam06166 398578016911 Protein of unknown function (DUF969); Region: DUF969; pfam06149 398578016912 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398578016913 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 398578016914 putative ligand binding site [chemical binding]; other site 398578016915 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578016916 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 398578016917 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 398578016918 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398578016919 catalytic residue [active] 398578016920 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398578016921 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578016922 DNA-binding site [nucleotide binding]; DNA binding site 398578016923 FCD domain; Region: FCD; pfam07729 398578016924 Predicted membrane protein [Function unknown]; Region: COG2259 398578016925 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398578016926 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 398578016927 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 398578016928 catalytic loop [active] 398578016929 iron binding site [ion binding]; other site 398578016930 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 398578016931 cyclase homology domain; Region: CHD; cd07302 398578016932 nucleotidyl binding site; other site 398578016933 metal binding site [ion binding]; metal-binding site 398578016934 dimer interface [polypeptide binding]; other site 398578016935 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398578016936 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 398578016937 ligand binding site [chemical binding]; other site 398578016938 flexible hinge region; other site 398578016939 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 398578016940 putative switch regulator; other site 398578016941 non-specific DNA interactions [nucleotide binding]; other site 398578016942 DNA binding site [nucleotide binding] 398578016943 sequence specific DNA binding site [nucleotide binding]; other site 398578016944 putative cAMP binding site [chemical binding]; other site 398578016945 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 398578016946 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578016947 Walker A/P-loop; other site 398578016948 ATP binding site [chemical binding]; other site 398578016949 Q-loop/lid; other site 398578016950 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398578016951 ABC transporter signature motif; other site 398578016952 Walker B; other site 398578016953 D-loop; other site 398578016954 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398578016955 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 398578016956 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398578016957 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 398578016958 active site 398578016959 phosphorylation site [posttranslational modification] 398578016960 intermolecular recognition site; other site 398578016961 dimerization interface [polypeptide binding]; other site 398578016962 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 398578016963 DNA binding site [nucleotide binding] 398578016964 HAMP domain; Region: HAMP; pfam00672 398578016965 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 398578016966 dimer interface [polypeptide binding]; other site 398578016967 phosphorylation site [posttranslational modification] 398578016968 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 398578016969 ATP binding site [chemical binding]; other site 398578016970 Mg2+ binding site [ion binding]; other site 398578016971 G-X-G motif; other site 398578016972 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 398578016973 metal ion-dependent adhesion site (MIDAS); other site 398578016974 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 398578016975 Walker A motif; other site 398578016976 ATP binding site [chemical binding]; other site 398578016977 Walker B motif; other site 398578016978 arginine finger; other site 398578016979 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 398578016980 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 398578016981 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 398578016982 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 398578016983 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 398578016984 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 398578016985 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 398578016986 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 398578016987 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 398578016988 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 398578016989 Walker A/P-loop; other site 398578016990 ATP binding site [chemical binding]; other site 398578016991 Q-loop/lid; other site 398578016992 ABC transporter signature motif; other site 398578016993 Walker B; other site 398578016994 D-loop; other site 398578016995 H-loop/switch region; other site 398578016996 FecCD transport family; Region: FecCD; pfam01032 398578016997 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 398578016998 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 398578016999 intersubunit interface [polypeptide binding]; other site 398578017000 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 398578017001 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 398578017002 N-terminal plug; other site 398578017003 ligand-binding site [chemical binding]; other site 398578017004 CHAD domain; Region: CHAD; pfam05235 398578017005 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 398578017006 putative deacylase active site [active] 398578017007 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 398578017008 YheO-like PAS domain; Region: PAS_6; pfam08348 398578017009 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 398578017010 DNA-binding interface [nucleotide binding]; DNA binding site 398578017011 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 398578017012 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 398578017013 tetramer interface [polypeptide binding]; other site 398578017014 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578017015 catalytic residue [active] 398578017016 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 398578017017 nudix motif; other site 398578017018 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 398578017019 SPFH domain / Band 7 family; Region: Band_7; pfam01145 398578017020 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 398578017021 NADH kinase; Region: PLN02929 398578017022 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 398578017023 RNA 2'-phosphotransferase; Reviewed; Region: PRK00819 398578017024 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 398578017025 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 398578017026 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 398578017027 putative major fimbrial protein SthE; Provisional; Region: PRK15292 398578017028 Fimbrial protein; Region: Fimbrial; pfam00419 398578017029 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 398578017030 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 398578017031 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398578017032 substrate binding pocket [chemical binding]; other site 398578017033 membrane-bound complex binding site; other site 398578017034 hinge residues; other site 398578017035 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 398578017036 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398578017037 substrate binding pocket [chemical binding]; other site 398578017038 membrane-bound complex binding site; other site 398578017039 hinge residues; other site 398578017040 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 398578017041 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398578017042 substrate binding pocket [chemical binding]; other site 398578017043 membrane-bound complex binding site; other site 398578017044 hinge residues; other site 398578017045 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398578017046 FAD binding domain; Region: FAD_binding_4; pfam01565 398578017047 aspartate aminotransferase; Provisional; Region: PRK06107 398578017048 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 398578017049 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578017050 homodimer interface [polypeptide binding]; other site 398578017051 catalytic residue [active] 398578017052 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 398578017053 dimer interface [polypeptide binding]; other site 398578017054 conserved gate region; other site 398578017055 putative PBP binding loops; other site 398578017056 ABC-ATPase subunit interface; other site 398578017057 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398578017058 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 398578017059 dimer interface [polypeptide binding]; other site 398578017060 conserved gate region; other site 398578017061 putative PBP binding loops; other site 398578017062 ABC-ATPase subunit interface; other site 398578017063 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398578017064 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 398578017065 Walker A/P-loop; other site 398578017066 ATP binding site [chemical binding]; other site 398578017067 Q-loop/lid; other site 398578017068 ABC transporter signature motif; other site 398578017069 Walker B; other site 398578017070 D-loop; other site 398578017071 H-loop/switch region; other site 398578017072 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 398578017073 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 398578017074 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 398578017075 homodimer interface [polypeptide binding]; other site 398578017076 substrate-cofactor binding pocket; other site 398578017077 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578017078 catalytic residue [active] 398578017079 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 398578017080 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 398578017081 active site residue [active] 398578017082 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 398578017083 active site residue [active] 398578017084 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 398578017085 active site residue [active] 398578017086 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 398578017087 active site residue [active] 398578017088 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578017089 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 398578017090 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 398578017091 Coenzyme A binding pocket [chemical binding]; other site 398578017092 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 398578017093 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 398578017094 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398578017095 NAD(P) binding site [chemical binding]; other site 398578017096 active site 398578017097 Predicted transcriptional regulators [Transcription]; Region: COG1733 398578017098 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 398578017099 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 398578017100 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398578017101 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578017102 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578017103 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 398578017104 conserved cys residue [active] 398578017105 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 398578017106 Fasciclin domain; Region: Fasciclin; pfam02469 398578017107 Ferritin-like domain; Region: Ferritin_2; pfam13668 398578017108 manganese transport protein MntH; Reviewed; Region: PRK00701 398578017109 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 398578017110 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 398578017111 active site residue [active] 398578017112 serine O-acetyltransferase; Region: cysE; TIGR01172 398578017113 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 398578017114 trimer interface [polypeptide binding]; other site 398578017115 active site 398578017116 substrate binding site [chemical binding]; other site 398578017117 CoA binding site [chemical binding]; other site 398578017118 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 398578017119 non-specific DNA binding site [nucleotide binding]; other site 398578017120 salt bridge; other site 398578017121 sequence-specific DNA binding site [nucleotide binding]; other site 398578017122 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 398578017123 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 398578017124 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398578017125 catalytic residue [active] 398578017126 putative major fimbrial protein SthE; Provisional; Region: PRK15292 398578017127 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 398578017128 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578017129 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 398578017130 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 398578017131 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 398578017132 ligand binding site [chemical binding]; other site 398578017133 NAD binding site [chemical binding]; other site 398578017134 dimerization interface [polypeptide binding]; other site 398578017135 catalytic site [active] 398578017136 hypothetical protein; Validated; Region: PRK06201 398578017137 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 398578017138 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 398578017139 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 398578017140 phosphate binding site [ion binding]; other site 398578017141 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578017142 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578017143 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 398578017144 dimerization interface [polypeptide binding]; other site 398578017145 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 398578017146 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398578017147 Coenzyme A binding pocket [chemical binding]; other site 398578017148 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 398578017149 Phage Tail Collar Domain; Region: Collar; pfam07484 398578017150 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 398578017151 Phage Tail Collar Domain; Region: Collar; pfam07484 398578017152 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 398578017153 Phage Tail Collar Domain; Region: Collar; pfam07484 398578017154 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 398578017155 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 398578017156 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 398578017157 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 398578017158 Putative Ig domain; Region: He_PIG; pfam05345 398578017159 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 398578017160 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 398578017161 homotrimer interaction site [polypeptide binding]; other site 398578017162 putative active site [active] 398578017163 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 398578017164 ATP-binding cassette domain of an uncharacterized transporter similar in sequence to NatA; Region: ABC_NatA_like; cd03267 398578017165 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 398578017166 Walker A/P-loop; other site 398578017167 ATP binding site [chemical binding]; other site 398578017168 Q-loop/lid; other site 398578017169 ABC transporter signature motif; other site 398578017170 Walker B; other site 398578017171 D-loop; other site 398578017172 H-loop/switch region; other site 398578017173 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 398578017174 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 398578017175 TrkA-N domain; Region: TrkA_N; pfam02254 398578017176 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398578017177 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_16; cd07263 398578017178 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 398578017179 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 398578017180 DEAD_2; Region: DEAD_2; pfam06733 398578017181 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 398578017182 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 398578017183 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 398578017184 short chain dehydrogenase; Provisional; Region: PRK06172 398578017185 classical (c) SDRs; Region: SDR_c; cd05233 398578017186 NAD(P) binding site [chemical binding]; other site 398578017187 active site 398578017188 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 398578017189 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: VapC; COG1487 398578017190 Predicted acyl esterases [General function prediction only]; Region: COG2936 398578017191 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 398578017192 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578017193 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398578017194 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 398578017195 eyelet of channel; other site 398578017196 trimer interface [polypeptide binding]; other site 398578017197 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 398578017198 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578017199 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 398578017200 putative dimerization interface [polypeptide binding]; other site 398578017201 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 398578017202 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 398578017203 dimer interface [polypeptide binding]; other site 398578017204 conserved gate region; other site 398578017205 putative PBP binding loops; other site 398578017206 ABC-ATPase subunit interface; other site 398578017207 NMT1-like family; Region: NMT1_2; pfam13379 398578017208 NMT1/THI5 like; Region: NMT1; pfam09084 398578017209 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 398578017210 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 398578017211 Walker A/P-loop; other site 398578017212 ATP binding site [chemical binding]; other site 398578017213 Q-loop/lid; other site 398578017214 ABC transporter signature motif; other site 398578017215 Walker B; other site 398578017216 D-loop; other site 398578017217 H-loop/switch region; other site 398578017218 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398578017219 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 398578017220 Uncharacterized conserved protein [Function unknown]; Region: COG2128 398578017221 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 398578017222 Cupin; Region: Cupin_6; pfam12852 398578017223 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398578017224 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578017225 Cupin domain; Region: Cupin_2; cl17218 398578017226 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398578017227 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578017228 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 398578017229 putative substrate translocation pore; other site 398578017230 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398578017231 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 398578017232 dihydroxy-acid dehydratase; Validated; Region: PRK06131 398578017233 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398578017234 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578017235 DNA-binding site [nucleotide binding]; DNA binding site 398578017236 FCD domain; Region: FCD; pfam07729 398578017237 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 398578017238 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 398578017239 Helix-turn-helix domain; Region: HTH_18; pfam12833 398578017240 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578017241 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 398578017242 MgtC family; Region: MgtC; pfam02308 398578017243 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 398578017244 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 398578017245 putative ion selectivity filter; other site 398578017246 putative pore gating glutamate residue; other site 398578017247 putative H+/Cl- coupling transport residue; other site 398578017248 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578017249 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578017250 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_5; cd08474 398578017251 putative effector binding pocket; other site 398578017252 putative dimerization interface [polypeptide binding]; other site 398578017253 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 398578017254 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 398578017255 putative NAD(P) binding site [chemical binding]; other site 398578017256 putative substrate binding site [chemical binding]; other site 398578017257 catalytic Zn binding site [ion binding]; other site 398578017258 structural Zn binding site [ion binding]; other site 398578017259 dimer interface [polypeptide binding]; other site 398578017260 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 398578017261 oligomeric interface; other site 398578017262 putative active site [active] 398578017263 homodimer interface [polypeptide binding]; other site 398578017264 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 398578017265 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 398578017266 active site 398578017267 SAM binding site [chemical binding]; other site 398578017268 homodimer interface [polypeptide binding]; other site 398578017269 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 398578017270 active site 398578017271 SAM binding site [chemical binding]; other site 398578017272 homodimer interface [polypeptide binding]; other site 398578017273 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 398578017274 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 398578017275 active site 398578017276 putative homodimer interface [polypeptide binding]; other site 398578017277 SAM binding site [chemical binding]; other site 398578017278 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 398578017279 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 398578017280 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 398578017281 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 398578017282 active site 398578017283 SAM binding site [chemical binding]; other site 398578017284 homodimer interface [polypeptide binding]; other site 398578017285 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 398578017286 active site 398578017287 SAM binding site [chemical binding]; other site 398578017288 homodimer interface [polypeptide binding]; other site 398578017289 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 398578017290 Precorrin-8X methylmutase; Region: CbiC; pfam02570 398578017291 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 398578017292 methyl-accepting protein IV; Provisional; Region: PRK09793 398578017293 HAMP domain; Region: HAMP; pfam00672 398578017294 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398578017295 dimer interface [polypeptide binding]; other site 398578017296 putative CheW interface [polypeptide binding]; other site 398578017297 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 398578017298 FecR protein; Region: FecR; pfam04773 398578017299 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 398578017300 catalytic residues [active] 398578017301 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 398578017302 putative C-terminal domain interface [polypeptide binding]; other site 398578017303 putative GSH binding site (G-site) [chemical binding]; other site 398578017304 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398578017305 putative dimer interface [polypeptide binding]; other site 398578017306 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 398578017307 dimer interface [polypeptide binding]; other site 398578017308 N-terminal domain interface [polypeptide binding]; other site 398578017309 putative substrate binding pocket (H-site) [chemical binding]; other site 398578017310 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 398578017311 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 398578017312 Protein export membrane protein; Region: SecD_SecF; cl14618 398578017313 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 398578017314 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398578017315 HlyD family secretion protein; Region: HlyD_3; pfam13437 398578017316 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578017317 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578017318 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578017319 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 398578017320 putative dimerization interface [polypeptide binding]; other site 398578017321 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 398578017322 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 398578017323 substrate binding site [chemical binding]; other site 398578017324 ligand binding site [chemical binding]; other site 398578017325 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 398578017326 substrate binding site [chemical binding]; other site 398578017327 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 398578017328 dimer interface [polypeptide binding]; other site 398578017329 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 398578017330 active site 398578017331 citrylCoA binding site [chemical binding]; other site 398578017332 oxalacetate/citrate binding site [chemical binding]; other site 398578017333 coenzyme A binding site [chemical binding]; other site 398578017334 catalytic triad [active] 398578017335 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 398578017336 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398578017337 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 398578017338 non-specific DNA binding site [nucleotide binding]; other site 398578017339 salt bridge; other site 398578017340 sequence-specific DNA binding site [nucleotide binding]; other site 398578017341 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 398578017342 Domain of unknown function (DUF955); Region: DUF955; pfam06114 398578017343 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 398578017344 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 398578017345 Low affinity iron permease; Region: Iron_permease; pfam04120 398578017346 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 398578017347 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 398578017348 active site 398578017349 motif I; other site 398578017350 motif II; other site 398578017351 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 398578017352 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 398578017353 active site 398578017354 homotetramer interface [polypeptide binding]; other site 398578017355 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578017356 active site 398578017357 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 398578017358 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 398578017359 S-adenosylmethionine binding site [chemical binding]; other site 398578017360 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 398578017361 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 398578017362 active site 398578017363 DinB family; Region: DinB; cl17821 398578017364 DinB superfamily; Region: DinB_2; pfam12867 398578017365 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 398578017366 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 398578017367 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 398578017368 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578017369 DNA-binding site [nucleotide binding]; DNA binding site 398578017370 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 398578017371 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578017372 homodimer interface [polypeptide binding]; other site 398578017373 catalytic residue [active] 398578017374 SnoaL-like domain; Region: SnoaL_2; pfam12680 398578017375 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398578017376 short chain dehydrogenase; Provisional; Region: PRK07024 398578017377 NAD(P) binding site [chemical binding]; other site 398578017378 active site 398578017379 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 398578017380 MFS/sugar transport protein; Region: MFS_2; pfam13347 398578017381 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 398578017382 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 398578017383 S-adenosylmethionine binding site [chemical binding]; other site 398578017384 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 398578017385 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 398578017386 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398578017387 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398578017388 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 398578017389 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578017390 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cd00102 398578017391 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cd00102 398578017392 IPT/TIG domain; Region: TIG; pfam01833 398578017393 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cd00102 398578017394 IPT/TIG domain; Region: TIG; pfam01833 398578017395 RNA polymerase sigma factor; Provisional; Region: PRK12528 398578017396 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398578017397 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 398578017398 DNA binding residues [nucleotide binding] 398578017399 fec operon regulator FecR; Reviewed; Region: PRK09774 398578017400 FecR protein; Region: FecR; pfam04773 398578017401 Secretin and TonB N terminus short domain; Region: STN; smart00965 398578017402 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 398578017403 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 398578017404 N-terminal plug; other site 398578017405 ligand-binding site [chemical binding]; other site 398578017406 RNA polymerase sigma factor; Provisional; Region: PRK12528 398578017407 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398578017408 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 398578017409 DNA binding residues [nucleotide binding] 398578017410 fec operon regulator FecR; Reviewed; Region: PRK09774 398578017411 FecR protein; Region: FecR; pfam04773 398578017412 Secretin and TonB N terminus short domain; Region: STN; smart00965 398578017413 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 398578017414 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 398578017415 N-terminal plug; other site 398578017416 ligand-binding site [chemical binding]; other site 398578017417 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 398578017418 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 398578017419 N-terminal plug; other site 398578017420 ligand-binding site [chemical binding]; other site 398578017421 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 398578017422 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 398578017423 glutaminase active site [active] 398578017424 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 398578017425 dimer interface [polypeptide binding]; other site 398578017426 active site 398578017427 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 398578017428 dimer interface [polypeptide binding]; other site 398578017429 active site 398578017430 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398578017431 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 398578017432 AsnC family; Region: AsnC_trans_reg; pfam01037 398578017433 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 398578017434 MASE2 domain; Region: MASE2; pfam05230 398578017435 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398578017436 metal binding site [ion binding]; metal-binding site 398578017437 active site 398578017438 I-site; other site 398578017439 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 398578017440 dimer interface [polypeptide binding]; other site 398578017441 phosphorylation site [posttranslational modification] 398578017442 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 398578017443 ATP binding site [chemical binding]; other site 398578017444 Mg2+ binding site [ion binding]; other site 398578017445 G-X-G motif; other site 398578017446 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 398578017447 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 398578017448 Substrate binding site; other site 398578017449 Mg++ binding site; other site 398578017450 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 398578017451 active site 398578017452 substrate binding site [chemical binding]; other site 398578017453 CoA binding site [chemical binding]; other site 398578017454 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578017455 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398578017456 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 398578017457 dimerization interface [polypeptide binding]; other site 398578017458 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 398578017459 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 398578017460 active site 398578017461 HIGH motif; other site 398578017462 dimer interface [polypeptide binding]; other site 398578017463 KMSKS motif; other site 398578017464 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 398578017465 RNA binding surface [nucleotide binding]; other site 398578017466 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 398578017467 Peptidase family M23; Region: Peptidase_M23; pfam01551 398578017468 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 398578017469 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 398578017470 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 398578017471 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 398578017472 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398578017473 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 398578017474 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398578017475 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 398578017476 putative transporter; Provisional; Region: PRK10504 398578017477 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 398578017478 putative substrate translocation pore; other site 398578017479 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 398578017480 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 398578017481 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 398578017482 23S rRNA interface [nucleotide binding]; other site 398578017483 L3 interface [polypeptide binding]; other site 398578017484 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 398578017485 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 398578017486 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 398578017487 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 398578017488 FAD binding site [chemical binding]; other site 398578017489 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 398578017490 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 398578017491 FtsJ-like methyltransferase; Region: FtsJ; cl17430 398578017492 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 398578017493 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 398578017494 homotetramer interface [polypeptide binding]; other site 398578017495 ligand binding site [chemical binding]; other site 398578017496 catalytic site [active] 398578017497 NAD binding site [chemical binding]; other site 398578017498 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 398578017499 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 398578017500 active site 398578017501 phosphorylation site [posttranslational modification] 398578017502 intermolecular recognition site; other site 398578017503 dimerization interface [polypeptide binding]; other site 398578017504 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 398578017505 DNA binding site [nucleotide binding] 398578017506 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 398578017507 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 398578017508 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 398578017509 Ligand Binding Site [chemical binding]; other site 398578017510 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 398578017511 GAF domain; Region: GAF_3; pfam13492 398578017512 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 398578017513 dimer interface [polypeptide binding]; other site 398578017514 phosphorylation site [posttranslational modification] 398578017515 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 398578017516 ATP binding site [chemical binding]; other site 398578017517 Mg2+ binding site [ion binding]; other site 398578017518 G-X-G motif; other site 398578017519 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 398578017520 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 398578017521 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398578017522 K+-transporting ATPase, c chain [Inorganic ion transport and metabolism]; Region: KdpC; COG2156 398578017523 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 398578017524 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 398578017525 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 398578017526 G1 box; other site 398578017527 putative GEF interaction site [polypeptide binding]; other site 398578017528 GTP/Mg2+ binding site [chemical binding]; other site 398578017529 Switch I region; other site 398578017530 G2 box; other site 398578017531 G3 box; other site 398578017532 Switch II region; other site 398578017533 G4 box; other site 398578017534 G5 box; other site 398578017535 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 398578017536 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 398578017537 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 398578017538 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 398578017539 Ligand binding site; other site 398578017540 Putative Catalytic site; other site 398578017541 DXD motif; other site 398578017542 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 398578017543 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 398578017544 motif II; other site 398578017545 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 398578017546 fimbrial assembly chaperone SthB; Provisional; Region: PRK15295 398578017547 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 398578017548 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 398578017549 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 398578017550 PapC N-terminal domain; Region: PapC_N; pfam13954 398578017551 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 398578017552 PapC C-terminal domain; Region: PapC_C; pfam13953 398578017553 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 398578017554 putative chaperone protein EcpD; Provisional; Region: PRK09926 398578017555 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 398578017556 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 398578017557 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 398578017558 PapC N-terminal domain; Region: PapC_N; pfam13954 398578017559 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 398578017560 PapC C-terminal domain; Region: PapC_C; pfam13953 398578017561 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 398578017562 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 398578017563 Predicted transcriptional regulator [Transcription]; Region: COG3905 398578017564 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 398578017565 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 398578017566 Glutamate binding site [chemical binding]; other site 398578017567 NAD binding site [chemical binding]; other site 398578017568 catalytic residues [active] 398578017569 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 398578017570 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 398578017571 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 398578017572 Na binding site [ion binding]; other site 398578017573 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 398578017574 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 398578017575 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 398578017576 DctM-like transporters; Region: DctM; pfam06808 398578017577 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 398578017578 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398578017579 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 398578017580 Bacterial transcriptional regulator; Region: IclR; pfam01614 398578017581 choline dehydrogenase; Validated; Region: PRK02106 398578017582 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398578017583 metabolite-proton symporter; Region: 2A0106; TIGR00883 398578017584 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 398578017585 putative substrate translocation pore; other site 398578017586 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578017587 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578017588 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 398578017589 dimerization interface [polypeptide binding]; other site 398578017590 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 398578017591 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 398578017592 putative substrate translocation pore; other site 398578017593 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 398578017594 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 398578017595 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 398578017596 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578017597 Walker A/P-loop; other site 398578017598 ATP binding site [chemical binding]; other site 398578017599 Q-loop/lid; other site 398578017600 ABC transporter signature motif; other site 398578017601 Walker B; other site 398578017602 D-loop; other site 398578017603 H-loop/switch region; other site 398578017604 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 398578017605 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398578017606 Walker A/P-loop; other site 398578017607 ATP binding site [chemical binding]; other site 398578017608 Q-loop/lid; other site 398578017609 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 398578017610 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 398578017611 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398578017612 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 398578017613 trimer interface [polypeptide binding]; other site 398578017614 eyelet of channel; other site 398578017615 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 398578017616 putative substrate translocation pore; other site 398578017617 Protein of unknown function, DUF485; Region: DUF485; pfam04341 398578017618 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 398578017619 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 398578017620 Na binding site [ion binding]; other site 398578017621 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 398578017622 substrate binding site [chemical binding]; other site 398578017623 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 398578017624 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 398578017625 active site 398578017626 catalytic site [active] 398578017627 substrate binding site [chemical binding]; other site 398578017628 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 398578017629 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 398578017630 ligand binding site [chemical binding]; other site 398578017631 flexible hinge region; other site 398578017632 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 398578017633 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 398578017634 metal binding triad; other site 398578017635 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 398578017636 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 398578017637 putative catalytic residue [active] 398578017638 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 398578017639 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 398578017640 putative deacylase active site [active] 398578017641 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 398578017642 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 398578017643 active site 398578017644 catalytic residues [active] 398578017645 metal binding site [ion binding]; metal-binding site 398578017646 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578017647 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578017648 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 398578017649 putative dimerization interface [polypeptide binding]; other site 398578017650 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK06130 398578017651 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 398578017652 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398578017653 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 398578017654 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578017655 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 398578017656 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 398578017657 putative ligand binding site [chemical binding]; other site 398578017658 NAD binding site [chemical binding]; other site 398578017659 dimerization interface [polypeptide binding]; other site 398578017660 catalytic site [active] 398578017661 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 398578017662 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398578017663 ATP-grasp domain; Region: ATP-grasp_4; cl17255 398578017664 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 398578017665 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 398578017666 carboxyltransferase (CT) interaction site; other site 398578017667 biotinylation site [posttranslational modification]; other site 398578017668 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 398578017669 enoyl-CoA hydratase; Provisional; Region: PRK05995 398578017670 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 398578017671 substrate binding site [chemical binding]; other site 398578017672 oxyanion hole (OAH) forming residues; other site 398578017673 trimer interface [polypeptide binding]; other site 398578017674 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 398578017675 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 398578017676 AMP-binding domain protein; Validated; Region: PRK08315 398578017677 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578017678 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398578017679 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 398578017680 acyl-activating enzyme (AAE) consensus motif; other site 398578017681 acyl-activating enzyme (AAE) consensus motif; other site 398578017682 putative AMP binding site [chemical binding]; other site 398578017683 putative active site [active] 398578017684 putative CoA binding site [chemical binding]; other site 398578017685 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 398578017686 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398578017687 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398578017688 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 398578017689 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398578017690 putative C-terminal domain interface [polypeptide binding]; other site 398578017691 putative GSH binding site (G-site) [chemical binding]; other site 398578017692 putative dimer interface [polypeptide binding]; other site 398578017693 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 398578017694 N-terminal domain interface [polypeptide binding]; other site 398578017695 dimer interface [polypeptide binding]; other site 398578017696 substrate binding pocket (H-site) [chemical binding]; other site 398578017697 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 398578017698 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 398578017699 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398578017700 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 398578017701 active site 398578017702 phosphorylation site [posttranslational modification] 398578017703 intermolecular recognition site; other site 398578017704 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 398578017705 DNA binding residues [nucleotide binding] 398578017706 dimerization interface [polypeptide binding]; other site 398578017707 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 398578017708 dimer interface [polypeptide binding]; other site 398578017709 phosphorylation site [posttranslational modification] 398578017710 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 398578017711 Mg2+ binding site [ion binding]; other site 398578017712 G-X-G motif; other site 398578017713 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 398578017714 Response regulator receiver domain; Region: Response_reg; pfam00072 398578017715 active site 398578017716 phosphorylation site [posttranslational modification] 398578017717 intermolecular recognition site; other site 398578017718 dimerization interface [polypeptide binding]; other site 398578017719 hypothetical protein; Provisional; Region: PRK04233 398578017720 Predicted membrane protein [Function unknown]; Region: COG2323 398578017721 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398578017722 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 398578017723 catalytic site [active] 398578017724 TAP-like protein; Region: Abhydrolase_4; pfam08386 398578017725 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398578017726 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398578017727 active site 398578017728 short chain dehydrogenase; Provisional; Region: PRK06953 398578017729 C factor cell-cell signaling protein; Provisional; Region: PRK09009 398578017730 NAD(P) binding site [chemical binding]; other site 398578017731 active site 398578017732 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 398578017733 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 398578017734 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 398578017735 dimer interface [polypeptide binding]; other site 398578017736 active site 398578017737 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 398578017738 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 398578017739 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 398578017740 active site clefts [active] 398578017741 zinc binding site [ion binding]; other site 398578017742 dimer interface [polypeptide binding]; other site 398578017743 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 398578017744 isovaleryl-CoA dehydrogenase; Region: PLN02519 398578017745 substrate binding site [chemical binding]; other site 398578017746 FAD binding site [chemical binding]; other site 398578017747 catalytic base [active] 398578017748 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 398578017749 CoenzymeA binding site [chemical binding]; other site 398578017750 subunit interaction site [polypeptide binding]; other site 398578017751 PHB binding site; other site 398578017752 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 398578017753 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 398578017754 DNA binding residues [nucleotide binding] 398578017755 putative dimer interface [polypeptide binding]; other site 398578017756 glutathione synthetase; Provisional; Region: PRK05246 398578017757 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 398578017758 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 398578017759 Benzoate membrane transport protein; Region: BenE; pfam03594 398578017760 benzoate transporter; Region: benE; TIGR00843 398578017761 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 398578017762 potassium uptake protein; Region: kup; TIGR00794 398578017763 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 398578017764 Glutamate-cysteine ligase; Region: GshA; pfam08886 398578017765 Cation transport protein; Region: TrkH; cl17365 398578017766 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 398578017767 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 398578017768 TrkA-N domain; Region: TrkA_N; pfam02254 398578017769 TrkA-C domain; Region: TrkA_C; pfam02080 398578017770 TrkA-N domain; Region: TrkA_N; pfam02254 398578017771 TrkA-C domain; Region: TrkA_C; pfam02080 398578017772 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 398578017773 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 398578017774 putative catalytic cysteine [active] 398578017775 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 398578017776 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 398578017777 Lipopolysaccharide-assembly; Region: LptE; cl01125 398578017778 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 398578017779 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 398578017780 HIGH motif; other site 398578017781 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 398578017782 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398578017783 active site 398578017784 KMSKS motif; other site 398578017785 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 398578017786 tRNA binding surface [nucleotide binding]; other site 398578017787 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398578017788 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 398578017789 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 398578017790 TolR protein; Region: tolR; TIGR02801 398578017791 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 398578017792 dihydrodipicolinate reductase; Provisional; Region: PRK00048 398578017793 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 398578017794 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 398578017795 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 398578017796 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 398578017797 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 398578017798 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 398578017799 metal binding site 2 [ion binding]; metal-binding site 398578017800 putative DNA binding helix; other site 398578017801 metal binding site 1 [ion binding]; metal-binding site 398578017802 dimer interface [polypeptide binding]; other site 398578017803 structural Zn2+ binding site [ion binding]; other site 398578017804 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 398578017805 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 398578017806 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 398578017807 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398578017808 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 398578017809 DNA binding residues [nucleotide binding] 398578017810 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 398578017811 nudix motif; other site 398578017812 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 398578017813 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 398578017814 active site 398578017815 phosphorylation site [posttranslational modification] 398578017816 intermolecular recognition site; other site 398578017817 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398578017818 Zn2+ binding site [ion binding]; other site 398578017819 Mg2+ binding site [ion binding]; other site 398578017820 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 398578017821 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 398578017822 PAS domain S-box; Region: sensory_box; TIGR00229 398578017823 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 398578017824 putative active site [active] 398578017825 heme pocket [chemical binding]; other site 398578017826 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 398578017827 PAS fold; Region: PAS_3; pfam08447 398578017828 putative active site [active] 398578017829 heme pocket [chemical binding]; other site 398578017830 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 398578017831 PAS domain; Region: PAS_9; pfam13426 398578017832 putative active site [active] 398578017833 heme pocket [chemical binding]; other site 398578017834 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398578017835 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 398578017836 dimer interface [polypeptide binding]; other site 398578017837 phosphorylation site [posttranslational modification] 398578017838 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 398578017839 ATP binding site [chemical binding]; other site 398578017840 Mg2+ binding site [ion binding]; other site 398578017841 G-X-G motif; other site 398578017842 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398578017843 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 398578017844 active site 398578017845 phosphorylation site [posttranslational modification] 398578017846 intermolecular recognition site; other site 398578017847 dimerization interface [polypeptide binding]; other site 398578017848 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 398578017849 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398578017850 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398578017851 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 398578017852 dimerization interface [polypeptide binding]; other site 398578017853 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 398578017854 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 398578017855 inhibitor-cofactor binding pocket; inhibition site 398578017856 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398578017857 catalytic residue [active] 398578017858 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 398578017859 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398578017860 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398578017861 DNA-binding site [nucleotide binding]; DNA binding site 398578017862 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 398578017863 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398578017864 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 398578017865 putative ligand binding site [chemical binding]; other site 398578017866 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 398578017867 TM-ABC transporter signature motif; other site 398578017868 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 398578017869 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 398578017870 TM-ABC transporter signature motif; other site 398578017871 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398578017872 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 398578017873 Walker A/P-loop; other site 398578017874 ATP binding site [chemical binding]; other site 398578017875 Q-loop/lid; other site 398578017876 ABC transporter signature motif; other site 398578017877 Walker B; other site 398578017878 D-loop; other site 398578017879 H-loop/switch region; other site 398578017880 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398578017881 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 398578017882 Walker A/P-loop; other site 398578017883 ATP binding site [chemical binding]; other site 398578017884 Q-loop/lid; other site 398578017885 ABC transporter signature motif; other site 398578017886 Walker B; other site 398578017887 D-loop; other site 398578017888 H-loop/switch region; other site 398578017889 allantoate amidohydrolase; Reviewed; Region: PRK12893 398578017890 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 398578017891 active site 398578017892 metal binding site [ion binding]; metal-binding site 398578017893 dimer interface [polypeptide binding]; other site 398578017894 Uncharacterized conserved protein [Function unknown]; Region: COG5476 398578017895 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 398578017896 MlrC C-terminus; Region: MlrC_C; pfam07171 398578017897 Malate dehydrogenase enzyme; Region: Malate_DH; pfam12434 398578017898 malic enzyme; Reviewed; Region: PRK12862 398578017899 Malic enzyme, N-terminal domain; Region: malic; pfam00390 398578017900 Malic enzyme, NAD binding domain; Region: Malic_M; smart00919 398578017901 NAD(P) binding pocket [chemical binding]; other site 398578017902 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 398578017903 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 398578017904 active site 398578017905 barstar interaction site; other site 398578017906 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 398578017907 putative RNAase interaction site [polypeptide binding]; other site 398578017908 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 398578017909 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 398578017910 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 398578017911 SurA N-terminal domain; Region: SurA_N; pfam09312 398578017912 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 398578017913 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 398578017914 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 398578017915 Organic solvent tolerance protein; Region: OstA_C; pfam04453 398578017916 Phosphotransferase enzyme family; Region: APH; pfam01636 398578017917 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 398578017918 active site 398578017919 ATP binding site [chemical binding]; other site 398578017920 substrate binding site [chemical binding]; other site 398578017921 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 398578017922 RNA methyltransferase, RsmE family; Region: TIGR00046 398578017923 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 398578017924 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398578017925 hypothetical protein; Provisional; Region: PRK07907 398578017926 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 398578017927 metal binding site [ion binding]; metal-binding site 398578017928 putative dimer interface [polypeptide binding]; other site 398578017929 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 398578017930 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 398578017931 DNA binding residues [nucleotide binding] 398578017932 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 398578017933 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398578017934 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 398578017935 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 398578017936 putative active site [active] 398578017937 catalytic site [active] 398578017938 putative metal binding site [ion binding]; other site 398578017939 Methyltransferase domain; Region: Methyltransf_23; pfam13489 398578017940 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 398578017941 S-adenosylmethionine binding site [chemical binding]; other site 398578017942 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 398578017943 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 398578017944 Predicted membrane protein [Function unknown]; Region: COG2119 398578017945 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 398578017946 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 398578017947 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 398578017948 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 398578017949 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 398578017950 short chain dehydrogenase; Provisional; Region: PRK07024 398578017951 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398578017952 NAD(P) binding site [chemical binding]; other site 398578017953 active site 398578017954 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 398578017955 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 398578017956 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 398578017957 active site 398578017958 motif I; other site 398578017959 motif II; other site 398578017960 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 398578017961 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 398578017962 putative active site [active] 398578017963 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 398578017964 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398578017965 active site 398578017966 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 398578017967 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398578017968 ligand binding site [chemical binding]; other site 398578017969 flexible hinge region; other site 398578017970 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 398578017971 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 398578017972 trmE is a tRNA modification GTPase; Region: trmE; cd04164 398578017973 G1 box; other site 398578017974 GTP/Mg2+ binding site [chemical binding]; other site 398578017975 Switch I region; other site 398578017976 G2 box; other site 398578017977 Switch II region; other site 398578017978 G3 box; other site 398578017979 G4 box; other site 398578017980 G5 box; other site 398578017981 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 398578017982 membrane protein insertase; Provisional; Region: PRK01318 398578017983 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 398578017984 hypothetical protein; Provisional; Region: PRK14389 398578017985 Ribonuclease P; Region: Ribonuclease_P; pfam00825 398578017986 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399