-- dump date 20140618_185345 -- class Genbank::misc_feature -- table misc_feature_note -- id note 643561000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 643561000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 643561000003 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 643561000004 Walker A motif; other site 643561000005 ATP binding site [chemical binding]; other site 643561000006 Walker B motif; other site 643561000007 arginine finger; other site 643561000008 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 643561000009 DnaA box-binding interface [nucleotide binding]; other site 643561000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 643561000011 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 643561000012 putative DNA binding surface [nucleotide binding]; other site 643561000013 dimer interface [polypeptide binding]; other site 643561000014 beta-clamp/clamp loader binding surface; other site 643561000015 beta-clamp/translesion DNA polymerase binding surface; other site 643561000016 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 643561000017 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 643561000018 ATP binding site [chemical binding]; other site 643561000019 Mg2+ binding site [ion binding]; other site 643561000020 G-X-G motif; other site 643561000021 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 643561000022 anchoring element; other site 643561000023 dimer interface [polypeptide binding]; other site 643561000024 ATP binding site [chemical binding]; other site 643561000025 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 643561000026 active site 643561000027 putative metal-binding site [ion binding]; other site 643561000028 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 643561000029 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 643561000030 HsdM N-terminal domain; Region: HsdM_N; pfam12161 643561000031 Methyltransferase domain; Region: Methyltransf_26; pfam13659 643561000032 Abi-like protein; Region: Abi_2; pfam07751 643561000033 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 643561000034 HsdM N-terminal domain; Region: HsdM_N; pfam12161 643561000035 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 643561000036 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 643561000037 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 643561000038 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 643561000039 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 643561000040 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 643561000041 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 643561000042 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 643561000043 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 643561000044 ATP binding site [chemical binding]; other site 643561000045 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 643561000046 putative Mg++ binding site [ion binding]; other site 643561000047 Protein of unknown function DUF45; Region: DUF45; pfam01863 643561000048 Protein of unknown function DUF262; Region: DUF262; pfam03235 643561000049 Uncharacterized conserved protein [Function unknown]; Region: COG1479 643561000050 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 643561000051 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 643561000052 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 643561000053 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 643561000054 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 643561000055 Walker A motif; other site 643561000056 ATP binding site [chemical binding]; other site 643561000057 Walker B motif; other site 643561000058 arginine finger; other site 643561000059 TROVE domain; Region: TROVE; pfam05731 643561000060 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 643561000061 hypothetical protein; Reviewed; Region: PRK09588 643561000062 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 643561000063 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 643561000064 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 643561000065 putative active site [active] 643561000066 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 643561000067 OsmC-like protein; Region: OsmC; cl00767 643561000068 4Fe-4S binding domain; Region: Fer4; cl02805 643561000069 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 643561000070 homoserine dehydrogenase; Provisional; Region: PRK06349 643561000071 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 643561000072 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 643561000073 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 643561000074 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 643561000075 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 643561000076 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 643561000077 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 643561000078 active site 643561000079 catalytic site [active] 643561000080 substrate binding site [chemical binding]; other site 643561000081 transcriptional regulatory protein PtsJ; Provisional; Region: PRK15481 643561000082 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643561000083 DNA-binding site [nucleotide binding]; DNA binding site 643561000084 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 643561000085 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 643561000086 catalytic residue [active] 643561000087 SnoaL-like domain; Region: SnoaL_2; pfam12680 643561000088 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561000089 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561000090 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 643561000091 dimerization interface [polypeptide binding]; other site 643561000092 2-isopropylmalate synthase; Validated; Region: PRK03739 643561000093 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 643561000094 active site 643561000095 catalytic residues [active] 643561000096 metal binding site [ion binding]; metal-binding site 643561000097 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 643561000098 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 643561000099 NlpC/P60 family; Region: NLPC_P60; pfam00877 643561000100 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 643561000101 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 643561000102 GAF domain; Region: GAF; pfam01590 643561000103 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 643561000104 PAS fold; Region: PAS_3; pfam08447 643561000105 putative active site [active] 643561000106 heme pocket [chemical binding]; other site 643561000107 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 643561000108 GAF domain; Region: GAF_3; pfam13492 643561000109 PAS domain S-box; Region: sensory_box; TIGR00229 643561000110 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 643561000111 putative active site [active] 643561000112 heme pocket [chemical binding]; other site 643561000113 GAF domain; Region: GAF; cl17456 643561000114 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 643561000115 PAS domain; Region: PAS_9; pfam13426 643561000116 putative active site [active] 643561000117 heme pocket [chemical binding]; other site 643561000118 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561000119 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561000120 metal binding site [ion binding]; metal-binding site 643561000121 active site 643561000122 I-site; other site 643561000123 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 643561000124 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 643561000125 LTXXQ motif family protein; Region: LTXXQ; pfam07813 643561000126 recombination associated protein; Reviewed; Region: rdgC; PRK00321 643561000127 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 643561000128 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 643561000129 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 643561000130 beta-ketothiolase; Provisional; Region: PRK09051 643561000131 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 643561000132 dimer interface [polypeptide binding]; other site 643561000133 active site 643561000134 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 643561000135 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 643561000136 DNA binding residues [nucleotide binding] 643561000137 dimer interface [polypeptide binding]; other site 643561000138 copper binding site [ion binding]; other site 643561000139 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 643561000140 metal-binding site [ion binding] 643561000141 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 643561000142 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 643561000143 metal-binding site [ion binding] 643561000144 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 643561000145 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 643561000146 motif II; other site 643561000147 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 643561000148 dimerization interface [polypeptide binding]; other site 643561000149 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561000150 dimer interface [polypeptide binding]; other site 643561000151 putative CheW interface [polypeptide binding]; other site 643561000152 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 643561000153 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 643561000154 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 643561000155 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 643561000156 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 643561000157 HlyD family secretion protein; Region: HlyD_3; pfam13437 643561000158 Outer membrane efflux protein; Region: OEP; pfam02321 643561000159 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 643561000160 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561000161 active site 643561000162 phosphorylation site [posttranslational modification] 643561000163 intermolecular recognition site; other site 643561000164 dimerization interface [polypeptide binding]; other site 643561000165 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 643561000166 DNA binding site [nucleotide binding] 643561000167 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 643561000168 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 643561000169 dimer interface [polypeptide binding]; other site 643561000170 phosphorylation site [posttranslational modification] 643561000171 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 643561000172 ATP binding site [chemical binding]; other site 643561000173 Mg2+ binding site [ion binding]; other site 643561000174 G-X-G motif; other site 643561000175 NIPSNAP; Region: NIPSNAP; pfam07978 643561000176 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 643561000177 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 643561000178 FMN binding site [chemical binding]; other site 643561000179 active site 643561000180 substrate binding site [chemical binding]; other site 643561000181 catalytic residue [active] 643561000182 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 643561000183 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 643561000184 substrate binding pocket [chemical binding]; other site 643561000185 membrane-bound complex binding site; other site 643561000186 hinge residues; other site 643561000187 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 643561000188 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 643561000189 Walker A/P-loop; other site 643561000190 ATP binding site [chemical binding]; other site 643561000191 Q-loop/lid; other site 643561000192 ABC transporter signature motif; other site 643561000193 Walker B; other site 643561000194 D-loop; other site 643561000195 H-loop/switch region; other site 643561000196 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 643561000197 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561000198 dimer interface [polypeptide binding]; other site 643561000199 conserved gate region; other site 643561000200 putative PBP binding loops; other site 643561000201 ABC-ATPase subunit interface; other site 643561000202 glutathionine S-transferase; Provisional; Region: PRK10542 643561000203 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 643561000204 C-terminal domain interface [polypeptide binding]; other site 643561000205 GSH binding site (G-site) [chemical binding]; other site 643561000206 dimer interface [polypeptide binding]; other site 643561000207 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 643561000208 dimer interface [polypeptide binding]; other site 643561000209 N-terminal domain interface [polypeptide binding]; other site 643561000210 substrate binding pocket (H-site) [chemical binding]; other site 643561000211 Flagellin N-methylase; Region: FliB; cl00497 643561000212 Predicted flavoprotein [General function prediction only]; Region: COG0431 643561000213 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 643561000214 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 643561000215 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 643561000216 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 643561000217 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 643561000218 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 643561000219 LysE type translocator; Region: LysE; cl00565 643561000220 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 643561000221 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 643561000222 P-loop; other site 643561000223 Magnesium ion binding site [ion binding]; other site 643561000224 Serine hydrolase; Region: Ser_hydrolase; pfam06821 643561000225 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 643561000226 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 643561000227 ParB-like nuclease domain; Region: ParB; smart00470 643561000228 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 643561000229 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 643561000230 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 643561000231 acyl-activating enzyme (AAE) consensus motif; other site 643561000232 acyl-activating enzyme (AAE) consensus motif; other site 643561000233 putative AMP binding site [chemical binding]; other site 643561000234 putative active site [active] 643561000235 putative CoA binding site [chemical binding]; other site 643561000236 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 643561000237 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 643561000238 short chain dehydrogenase; Provisional; Region: PRK08278 643561000239 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643561000240 NAD(P) binding site [chemical binding]; other site 643561000241 active site 643561000242 enoyl-CoA hydratase; Provisional; Region: PRK05995 643561000243 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 643561000244 substrate binding site [chemical binding]; other site 643561000245 oxyanion hole (OAH) forming residues; other site 643561000246 trimer interface [polypeptide binding]; other site 643561000247 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 643561000248 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 643561000249 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 643561000250 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 643561000251 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 643561000252 carboxyltransferase (CT) interaction site; other site 643561000253 biotinylation site [posttranslational modification]; other site 643561000254 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 643561000255 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 643561000256 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 643561000257 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 643561000258 TIGR03084 family protein; Region: TIGR03084 643561000259 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 643561000260 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 643561000261 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 643561000262 Predicted membrane protein [Function unknown]; Region: COG2246 643561000263 GtrA-like protein; Region: GtrA; pfam04138 643561000264 hypothetical protein; Provisional; Region: PRK07233 643561000265 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 643561000266 hydroxyglutarate oxidase; Provisional; Region: PRK11728 643561000267 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643561000268 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 643561000269 NAD(P) binding site [chemical binding]; other site 643561000270 active site 643561000271 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 643561000272 classical (c) SDRs; Region: SDR_c; cd05233 643561000273 NAD(P) binding site [chemical binding]; other site 643561000274 active site 643561000275 FAD binding domain; Region: FAD_binding_4; pfam01565 643561000276 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 643561000277 hypothetical protein; Validated; Region: PRK08238 643561000278 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 643561000279 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 643561000280 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 643561000281 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 643561000282 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 643561000283 Carboxylesterase family; Region: COesterase; pfam00135 643561000284 substrate binding pocket [chemical binding]; other site 643561000285 catalytic triad [active] 643561000286 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 643561000287 active site 643561000288 SAM binding site [chemical binding]; other site 643561000289 homodimer interface [polypeptide binding]; other site 643561000290 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 643561000291 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 643561000292 putative active site [active] 643561000293 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 643561000294 putative active site [active] 643561000295 Precorrin-8X methylmutase; Region: CbiC; pfam02570 643561000296 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 643561000297 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 643561000298 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 643561000299 active site 643561000300 putative homodimer interface [polypeptide binding]; other site 643561000301 SAM binding site [chemical binding]; other site 643561000302 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 643561000303 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 643561000304 S-adenosylmethionine binding site [chemical binding]; other site 643561000305 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 643561000306 active site 643561000307 SAM binding site [chemical binding]; other site 643561000308 homodimer interface [polypeptide binding]; other site 643561000309 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 643561000310 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 643561000311 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 643561000312 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 643561000313 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 643561000314 active site 643561000315 SAM binding site [chemical binding]; other site 643561000316 homodimer interface [polypeptide binding]; other site 643561000317 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 643561000318 dimer interface [polypeptide binding]; other site 643561000319 [2Fe-2S] cluster binding site [ion binding]; other site 643561000320 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 643561000321 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561000322 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561000323 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 643561000324 dimerization interface [polypeptide binding]; other site 643561000325 substrate binding pocket [chemical binding]; other site 643561000326 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 643561000327 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 643561000328 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 643561000329 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 643561000330 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 643561000331 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643561000332 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 643561000333 Major Facilitator Superfamily; Region: MFS_1; pfam07690 643561000334 putative substrate translocation pore; other site 643561000335 Yersinia/Haemophilus virulence surface antigen; Region: Peptidase_C58; cl04145 643561000336 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 643561000337 hydrophobic ligand binding site; other site 643561000338 HdeA/HdeB family; Region: HdeA; cl05752 643561000339 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 643561000340 Protein of unknown function (DUF1010); Region: DUF1010; pfam06231 643561000341 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 643561000342 YCII-related domain; Region: YCII; cl00999 643561000343 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 643561000344 FAD binding domain; Region: FAD_binding_4; pfam01565 643561000345 Ca2+ binding site [ion binding]; other site 643561000346 EF hand; Region: EF_hand_3; pfam13202 643561000347 EF-hand domain pair; Region: EF_hand_5; pfam13499 643561000348 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 643561000349 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 643561000350 active site 643561000351 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 643561000352 active site 643561000353 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 643561000354 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 643561000355 S-adenosylmethionine binding site [chemical binding]; other site 643561000356 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 643561000357 CoenzymeA binding site [chemical binding]; other site 643561000358 subunit interaction site [polypeptide binding]; other site 643561000359 PHB binding site; other site 643561000360 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 643561000361 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 643561000362 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 643561000363 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 643561000364 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 643561000365 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 643561000366 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 643561000367 dimerization interface [polypeptide binding]; other site 643561000368 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561000369 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561000370 dimer interface [polypeptide binding]; other site 643561000371 putative CheW interface [polypeptide binding]; other site 643561000372 B12 binding domain; Region: B12-binding; pfam02310 643561000373 B12 binding site [chemical binding]; other site 643561000374 Radical SAM superfamily; Region: Radical_SAM; pfam04055 643561000375 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 643561000376 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 643561000377 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561000378 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561000379 metal binding site [ion binding]; metal-binding site 643561000380 active site 643561000381 I-site; other site 643561000382 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 643561000383 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 643561000384 trimer interface [polypeptide binding]; other site 643561000385 putative metal binding site [ion binding]; other site 643561000386 Uncharacterized conserved protein [Function unknown]; Region: COG3603 643561000387 Family description; Region: ACT_7; pfam13840 643561000388 LysE type translocator; Region: LysE; cl00565 643561000389 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 643561000390 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561000391 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 643561000392 putative dimerization interface [polypeptide binding]; other site 643561000393 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643561000394 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643561000395 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 643561000396 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 643561000397 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 643561000398 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 643561000399 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 643561000400 Walker A/P-loop; other site 643561000401 ATP binding site [chemical binding]; other site 643561000402 Q-loop/lid; other site 643561000403 ABC transporter signature motif; other site 643561000404 Walker B; other site 643561000405 D-loop; other site 643561000406 H-loop/switch region; other site 643561000407 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 643561000408 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 643561000409 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561000410 dimer interface [polypeptide binding]; other site 643561000411 conserved gate region; other site 643561000412 putative PBP binding loops; other site 643561000413 ABC-ATPase subunit interface; other site 643561000414 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561000415 dimer interface [polypeptide binding]; other site 643561000416 conserved gate region; other site 643561000417 putative PBP binding loops; other site 643561000418 ABC-ATPase subunit interface; other site 643561000419 hypothetical protein; Provisional; Region: PRK09126 643561000420 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 643561000421 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 643561000422 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561000423 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 643561000424 dimerization interface [polypeptide binding]; other site 643561000425 substrate binding pocket [chemical binding]; other site 643561000426 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 643561000427 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 643561000428 dimer interface [polypeptide binding]; other site 643561000429 NADP binding site [chemical binding]; other site 643561000430 catalytic residues [active] 643561000431 Transcriptional regulator [Transcription]; Region: IclR; COG1414 643561000432 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 643561000433 Bacterial transcriptional regulator; Region: IclR; pfam01614 643561000434 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 643561000435 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 643561000436 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 643561000437 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 643561000438 acyl-activating enzyme (AAE) consensus motif; other site 643561000439 putative AMP binding site [chemical binding]; other site 643561000440 putative active site [active] 643561000441 putative CoA binding site [chemical binding]; other site 643561000442 Arginase family; Region: Arginase; cd09989 643561000443 active site 643561000444 Mn binding site [ion binding]; other site 643561000445 oligomer interface [polypeptide binding]; other site 643561000446 ornithine cyclodeaminase; Validated; Region: PRK07589 643561000447 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 643561000448 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 643561000449 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 643561000450 putative DNA binding site [nucleotide binding]; other site 643561000451 putative Zn2+ binding site [ion binding]; other site 643561000452 AsnC family; Region: AsnC_trans_reg; pfam01037 643561000453 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 643561000454 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 643561000455 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 643561000456 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 643561000457 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 643561000458 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 643561000459 Switch I; other site 643561000460 Switch II; other site 643561000461 cell division topological specificity factor MinE; Provisional; Region: PRK13989 643561000462 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 643561000463 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 643561000464 Peptidase M14-like domain of Escherichia coli Murein Peptide Amidase A and related proteins; Region: M14_MpaA_like; cd06904 643561000465 putative active site [active] 643561000466 Zn binding site [ion binding]; other site 643561000467 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 643561000468 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 643561000469 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 643561000470 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 643561000471 hydroxyglutarate oxidase; Provisional; Region: PRK11728 643561000472 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 643561000473 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561000474 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 643561000475 dimerization interface [polypeptide binding]; other site 643561000476 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643561000477 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643561000478 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 643561000479 oligomeric interface; other site 643561000480 putative active site [active] 643561000481 homodimer interface [polypeptide binding]; other site 643561000482 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 643561000483 Ligand Binding Site [chemical binding]; other site 643561000484 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 643561000485 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 643561000486 active site 643561000487 metal binding site [ion binding]; metal-binding site 643561000488 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 643561000489 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561000490 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 643561000491 substrate binding pocket [chemical binding]; other site 643561000492 dimerization interface [polypeptide binding]; other site 643561000493 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 643561000494 active site 643561000495 substrate-binding site [chemical binding]; other site 643561000496 metal-binding site [ion binding] 643561000497 GTP binding site [chemical binding]; other site 643561000498 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 643561000499 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643561000500 NAD(P) binding site [chemical binding]; other site 643561000501 active site 643561000502 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 643561000503 Ligand Binding Site [chemical binding]; other site 643561000504 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 643561000505 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 643561000506 threonine dehydratase; Provisional; Region: PRK07334 643561000507 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 643561000508 tetramer interface [polypeptide binding]; other site 643561000509 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561000510 catalytic residue [active] 643561000511 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 643561000512 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 643561000513 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 643561000514 active site 643561000515 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561000516 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 643561000517 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 643561000518 dimerization interface [polypeptide binding]; other site 643561000519 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 643561000520 Cupin domain; Region: Cupin_2; pfam07883 643561000521 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 643561000522 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 643561000523 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 643561000524 maleylacetoacetate isomerase; Region: maiA; TIGR01262 643561000525 C-terminal domain interface [polypeptide binding]; other site 643561000526 GSH binding site (G-site) [chemical binding]; other site 643561000527 putative dimer interface [polypeptide binding]; other site 643561000528 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 643561000529 N-terminal domain interface [polypeptide binding]; other site 643561000530 dimer interface [polypeptide binding]; other site 643561000531 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 643561000532 benzoate transport; Region: 2A0115; TIGR00895 643561000533 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 643561000534 putative substrate translocation pore; other site 643561000535 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 643561000536 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643561000537 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 643561000538 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 643561000539 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 643561000540 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 643561000541 homodimer interface [polypeptide binding]; other site 643561000542 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561000543 catalytic residue [active] 643561000544 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 643561000545 YheO-like PAS domain; Region: PAS_6; pfam08348 643561000546 HTH domain; Region: HTH_22; pfam13309 643561000547 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 643561000548 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 643561000549 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 643561000550 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 643561000551 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561000552 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561000553 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 643561000554 substrate binding pocket [chemical binding]; other site 643561000555 dimerization interface [polypeptide binding]; other site 643561000556 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 643561000557 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 643561000558 catalytic loop [active] 643561000559 iron binding site [ion binding]; other site 643561000560 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S]...; Region: O2ase_reductase_like; cd06187 643561000561 FAD binding pocket [chemical binding]; other site 643561000562 FAD binding motif [chemical binding]; other site 643561000563 phosphate binding motif [ion binding]; other site 643561000564 beta-alpha-beta structure motif; other site 643561000565 NAD binding pocket [chemical binding]; other site 643561000566 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 643561000567 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 643561000568 iron-sulfur cluster [ion binding]; other site 643561000569 [2Fe-2S] cluster binding site [ion binding]; other site 643561000570 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 643561000571 putative alpha subunit interface [polypeptide binding]; other site 643561000572 putative active site [active] 643561000573 putative substrate binding site [chemical binding]; other site 643561000574 Fe binding site [ion binding]; other site 643561000575 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 643561000576 inter-subunit interface; other site 643561000577 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 643561000578 [2Fe-2S] cluster binding site [ion binding]; other site 643561000579 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561000580 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561000581 dimer interface [polypeptide binding]; other site 643561000582 putative CheW interface [polypeptide binding]; other site 643561000583 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 643561000584 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 643561000585 Major Facilitator Superfamily; Region: MFS_1; pfam07690 643561000586 putative substrate translocation pore; other site 643561000587 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 643561000588 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561000589 active site 643561000590 phosphorylation site [posttranslational modification] 643561000591 intermolecular recognition site; other site 643561000592 dimerization interface [polypeptide binding]; other site 643561000593 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 643561000594 Walker A motif; other site 643561000595 ATP binding site [chemical binding]; other site 643561000596 Walker B motif; other site 643561000597 arginine finger; other site 643561000598 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 643561000599 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643561000600 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 643561000601 dimer interface [polypeptide binding]; other site 643561000602 phosphorylation site [posttranslational modification] 643561000603 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 643561000604 ATP binding site [chemical binding]; other site 643561000605 Mg2+ binding site [ion binding]; other site 643561000606 G-X-G motif; other site 643561000607 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 643561000608 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 643561000609 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 643561000610 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561000611 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 643561000612 putative dimerization interface [polypeptide binding]; other site 643561000613 putative substrate binding pocket [chemical binding]; other site 643561000614 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 643561000615 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 643561000616 active site 643561000617 Cupin domain; Region: Cupin_2; pfam07883 643561000618 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 643561000619 CoA-transferase family III; Region: CoA_transf_3; pfam02515 643561000620 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 643561000621 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 643561000622 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 643561000623 ATP binding site [chemical binding]; other site 643561000624 putative Mg++ binding site [ion binding]; other site 643561000625 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 643561000626 nucleotide binding region [chemical binding]; other site 643561000627 ATP-binding site [chemical binding]; other site 643561000628 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 643561000629 HRDC domain; Region: HRDC; pfam00570 643561000630 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 643561000631 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 643561000632 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 643561000633 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 643561000634 DEAD_2; Region: DEAD_2; pfam06733 643561000635 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 643561000636 RNA ligase; Region: RNA_ligase; pfam09414 643561000637 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643561000638 Zn2+ binding site [ion binding]; other site 643561000639 Mg2+ binding site [ion binding]; other site 643561000640 AAA domain; Region: AAA_33; pfam13671 643561000641 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643561000642 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643561000643 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 643561000644 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 643561000645 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 643561000646 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 643561000647 NAD(P) binding site [chemical binding]; other site 643561000648 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 643561000649 amidase; Provisional; Region: PRK07869 643561000650 Amidase; Region: Amidase; cl11426 643561000651 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 643561000652 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 643561000653 N-terminal plug; other site 643561000654 ligand-binding site [chemical binding]; other site 643561000655 Protein of unknown function (DUF4087); Region: DUF4087; pfam13316 643561000656 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561000657 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561000658 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 643561000659 dimerization interface [polypeptide binding]; other site 643561000660 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 643561000661 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 643561000662 Response regulator receiver domain; Region: Response_reg; pfam00072 643561000663 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561000664 active site 643561000665 phosphorylation site [posttranslational modification] 643561000666 intermolecular recognition site; other site 643561000667 dimerization interface [polypeptide binding]; other site 643561000668 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 643561000669 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 643561000670 DNA binding residues [nucleotide binding] 643561000671 dimerization interface [polypeptide binding]; other site 643561000672 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 643561000673 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643561000674 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 643561000675 dimer interface [polypeptide binding]; other site 643561000676 phosphorylation site [posttranslational modification] 643561000677 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 643561000678 ATP binding site [chemical binding]; other site 643561000679 Mg2+ binding site [ion binding]; other site 643561000680 G-X-G motif; other site 643561000681 Response regulator receiver domain; Region: Response_reg; pfam00072 643561000682 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561000683 active site 643561000684 phosphorylation site [posttranslational modification] 643561000685 intermolecular recognition site; other site 643561000686 dimerization interface [polypeptide binding]; other site 643561000687 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 643561000688 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 643561000689 putative ligand binding site [chemical binding]; other site 643561000690 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 643561000691 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643561000692 TM-ABC transporter signature motif; other site 643561000693 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 643561000694 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 643561000695 TM-ABC transporter signature motif; other site 643561000696 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 643561000697 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 643561000698 Walker A/P-loop; other site 643561000699 ATP binding site [chemical binding]; other site 643561000700 Q-loop/lid; other site 643561000701 ABC transporter signature motif; other site 643561000702 Walker B; other site 643561000703 D-loop; other site 643561000704 H-loop/switch region; other site 643561000705 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 643561000706 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 643561000707 Walker A/P-loop; other site 643561000708 ATP binding site [chemical binding]; other site 643561000709 Q-loop/lid; other site 643561000710 ABC transporter signature motif; other site 643561000711 Walker B; other site 643561000712 D-loop; other site 643561000713 H-loop/switch region; other site 643561000714 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 643561000715 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 643561000716 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 643561000717 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 643561000718 multimer interface [polypeptide binding]; other site 643561000719 active site 643561000720 catalytic triad [active] 643561000721 dimer interface [polypeptide binding]; other site 643561000722 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 643561000723 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561000724 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 643561000725 dimerization interface [polypeptide binding]; other site 643561000726 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 643561000727 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 643561000728 octamer interface [polypeptide binding]; other site 643561000729 active site 643561000730 Papain-like cysteine protease AvrRpt2; Region: Peptidase_C70; pfam12385 643561000731 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 643561000732 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643561000733 DNA-binding site [nucleotide binding]; DNA binding site 643561000734 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 643561000735 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561000736 homodimer interface [polypeptide binding]; other site 643561000737 catalytic residue [active] 643561000738 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561000739 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 643561000740 putative substrate binding pocket [chemical binding]; other site 643561000741 putative dimerization interface [polypeptide binding]; other site 643561000742 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 643561000743 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 643561000744 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 643561000745 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561000746 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561000747 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 643561000748 dimerization interface [polypeptide binding]; other site 643561000749 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643561000750 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 643561000751 substrate binding pocket [chemical binding]; other site 643561000752 membrane-bound complex binding site; other site 643561000753 hinge residues; other site 643561000754 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 643561000755 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 643561000756 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 643561000757 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; pfam04115 643561000758 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 643561000759 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 643561000760 Walker A/P-loop; other site 643561000761 ATP binding site [chemical binding]; other site 643561000762 Q-loop/lid; other site 643561000763 ABC transporter signature motif; other site 643561000764 Walker B; other site 643561000765 D-loop; other site 643561000766 H-loop/switch region; other site 643561000767 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561000768 dimer interface [polypeptide binding]; other site 643561000769 conserved gate region; other site 643561000770 putative PBP binding loops; other site 643561000771 ABC-ATPase subunit interface; other site 643561000772 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561000773 dimer interface [polypeptide binding]; other site 643561000774 conserved gate region; other site 643561000775 putative PBP binding loops; other site 643561000776 ABC-ATPase subunit interface; other site 643561000777 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643561000778 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 643561000779 substrate binding pocket [chemical binding]; other site 643561000780 membrane-bound complex binding site; other site 643561000781 hinge residues; other site 643561000782 Transcriptional regulators [Transcription]; Region: FadR; COG2186 643561000783 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643561000784 DNA-binding site [nucleotide binding]; DNA binding site 643561000785 FCD domain; Region: FCD; pfam07729 643561000786 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 643561000787 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 643561000788 substrate binding pocket [chemical binding]; other site 643561000789 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 643561000790 B12 binding site [chemical binding]; other site 643561000791 cobalt ligand [ion binding]; other site 643561000792 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 643561000793 CRISPR-associated protein Cas9/Csn1, subtype II/NMEMI; Region: cas_Csn1; TIGR01865 643561000794 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 643561000795 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 643561000796 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 643561000797 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 643561000798 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 643561000799 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 643561000800 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 643561000801 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 643561000802 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 643561000803 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 643561000804 Phosphoesterase family; Region: Phosphoesterase; pfam04185 643561000805 Domain of unknown function (DUF756); Region: DUF756; pfam05506 643561000806 Domain of unknown function (DUF756); Region: DUF756; pfam05506 643561000807 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561000808 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561000809 metal binding site [ion binding]; metal-binding site 643561000810 active site 643561000811 I-site; other site 643561000812 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 643561000813 Protein of unknown function DUF72; Region: DUF72; pfam01904 643561000814 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 643561000815 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 643561000816 FAD binding pocket [chemical binding]; other site 643561000817 FAD binding motif [chemical binding]; other site 643561000818 phosphate binding motif [ion binding]; other site 643561000819 beta-alpha-beta structure motif; other site 643561000820 NAD binding pocket [chemical binding]; other site 643561000821 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561000822 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561000823 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 643561000824 putative effector binding pocket; other site 643561000825 putative dimerization interface [polypeptide binding]; other site 643561000826 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 643561000827 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643561000828 NAD(P) binding site [chemical binding]; other site 643561000829 active site 643561000830 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 643561000831 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 643561000832 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 643561000833 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 643561000834 dimerization interface [polypeptide binding]; other site 643561000835 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561000836 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561000837 dimer interface [polypeptide binding]; other site 643561000838 putative CheW interface [polypeptide binding]; other site 643561000839 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561000840 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 643561000841 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 643561000842 dimer interface [polypeptide binding]; other site 643561000843 phosphorylation site [posttranslational modification] 643561000844 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 643561000845 ATP binding site [chemical binding]; other site 643561000846 Mg2+ binding site [ion binding]; other site 643561000847 G-X-G motif; other site 643561000848 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 643561000849 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561000850 active site 643561000851 phosphorylation site [posttranslational modification] 643561000852 intermolecular recognition site; other site 643561000853 dimerization interface [polypeptide binding]; other site 643561000854 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 643561000855 Walker A motif; other site 643561000856 ATP binding site [chemical binding]; other site 643561000857 Walker B motif; other site 643561000858 arginine finger; other site 643561000859 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 643561000860 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 643561000861 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 643561000862 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 643561000863 Walker A motif; other site 643561000864 ATP binding site [chemical binding]; other site 643561000865 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 643561000866 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 643561000867 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 643561000868 Nitrogen regulatory protein P-II; Region: P-II; smart00938 643561000869 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 643561000870 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 643561000871 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 643561000872 PAAR motif; Region: PAAR_motif; pfam05488 643561000873 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 643561000874 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 643561000875 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 643561000876 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 643561000877 FAD binding domain; Region: FAD_binding_4; pfam01565 643561000878 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 643561000879 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 643561000880 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 643561000881 Cysteine-rich domain; Region: CCG; pfam02754 643561000882 Cysteine-rich domain; Region: CCG; pfam02754 643561000883 ProQ/FINO family; Region: ProQ; pfam04352 643561000884 putative RNA binding sites [nucleotide binding]; other site 643561000885 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 643561000886 catalytic residues [active] 643561000887 dimer interface [polypeptide binding]; other site 643561000888 EamA-like transporter family; Region: EamA; cl17759 643561000889 lysophospholipid transporter LplT; Provisional; Region: PRK11195 643561000890 alanine racemase; Reviewed; Region: dadX; PRK03646 643561000891 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 643561000892 active site 643561000893 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 643561000894 substrate binding site [chemical binding]; other site 643561000895 catalytic residues [active] 643561000896 dimer interface [polypeptide binding]; other site 643561000897 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 643561000898 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 643561000899 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 643561000900 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 643561000901 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 643561000902 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561000903 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 643561000904 putative DNA binding site [nucleotide binding]; other site 643561000905 putative Zn2+ binding site [ion binding]; other site 643561000906 Bacterial transcriptional regulator; Region: IclR; pfam01614 643561000907 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 643561000908 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 643561000909 C-terminal domain interface [polypeptide binding]; other site 643561000910 GSH binding site (G-site) [chemical binding]; other site 643561000911 dimer interface [polypeptide binding]; other site 643561000912 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 643561000913 N-terminal domain interface [polypeptide binding]; other site 643561000914 dimer interface [polypeptide binding]; other site 643561000915 substrate binding pocket (H-site) [chemical binding]; other site 643561000916 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 643561000917 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 643561000918 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 643561000919 DNA repair protein RadA; Provisional; Region: PRK11823 643561000920 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 643561000921 Walker A motif/ATP binding site; other site 643561000922 ATP binding site [chemical binding]; other site 643561000923 Walker B motif; other site 643561000924 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 643561000925 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 643561000926 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 643561000927 homodimer interface [polypeptide binding]; other site 643561000928 substrate-cofactor binding pocket; other site 643561000929 catalytic residue [active] 643561000930 Zinc-finger domain; Region: zf-CHCC; cl01821 643561000931 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 643561000932 O-Antigen ligase; Region: Wzy_C; pfam04932 643561000933 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 643561000934 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 643561000935 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 643561000936 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 643561000937 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 643561000938 active site 643561000939 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 643561000940 Nitronate monooxygenase; Region: NMO; pfam03060 643561000941 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 643561000942 FMN binding site [chemical binding]; other site 643561000943 substrate binding site [chemical binding]; other site 643561000944 putative catalytic residue [active] 643561000945 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561000946 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561000947 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 643561000948 dimerization interface [polypeptide binding]; other site 643561000949 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 643561000950 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643561000951 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 643561000952 dimerization interface [polypeptide binding]; other site 643561000953 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 643561000954 dimer interface [polypeptide binding]; other site 643561000955 phosphorylation site [posttranslational modification] 643561000956 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 643561000957 ATP binding site [chemical binding]; other site 643561000958 G-X-G motif; other site 643561000959 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 643561000960 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561000961 active site 643561000962 phosphorylation site [posttranslational modification] 643561000963 intermolecular recognition site; other site 643561000964 dimerization interface [polypeptide binding]; other site 643561000965 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 643561000966 DNA binding site [nucleotide binding] 643561000967 AmpG-like permease; Region: 2A0125; TIGR00901 643561000968 Cupin domain; Region: Cupin_2; cl17218 643561000969 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 643561000970 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 643561000971 EamA-like transporter family; Region: EamA; pfam00892 643561000972 Peptidase family M48; Region: Peptidase_M48; cl12018 643561000973 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 643561000974 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 643561000975 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 643561000976 glutamate carboxypeptidase; Reviewed; Region: PRK06133 643561000977 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 643561000978 metal binding site [ion binding]; metal-binding site 643561000979 dimer interface [polypeptide binding]; other site 643561000980 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 643561000981 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 643561000982 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 643561000983 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 643561000984 GAF domain; Region: GAF; pfam01590 643561000985 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561000986 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561000987 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 643561000988 dimerization interface [polypeptide binding]; other site 643561000989 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 643561000990 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 643561000991 putative substrate translocation pore; other site 643561000992 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 643561000993 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 643561000994 active site 643561000995 catalytic tetrad [active] 643561000996 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 643561000997 putative active site [active] 643561000998 putative catalytic site [active] 643561000999 putative DNA binding site [nucleotide binding]; other site 643561001000 putative phosphate binding site [ion binding]; other site 643561001001 metal binding site A [ion binding]; metal-binding site 643561001002 putative AP binding site [nucleotide binding]; other site 643561001003 putative metal binding site B [ion binding]; other site 643561001004 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 643561001005 active site 643561001006 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 643561001007 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 643561001008 GatB domain; Region: GatB_Yqey; smart00845 643561001009 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 643561001010 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 643561001011 P-loop; other site 643561001012 Magnesium ion binding site [ion binding]; other site 643561001013 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 643561001014 Divergent AAA domain; Region: AAA_4; pfam04326 643561001015 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 643561001016 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 643561001017 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 643561001018 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 643561001019 rod shape-determining protein MreB; Provisional; Region: PRK13927 643561001020 MreB and similar proteins; Region: MreB_like; cd10225 643561001021 nucleotide binding site [chemical binding]; other site 643561001022 Mg binding site [ion binding]; other site 643561001023 putative protofilament interaction site [polypeptide binding]; other site 643561001024 RodZ interaction site [polypeptide binding]; other site 643561001025 rod shape-determining protein MreC; Provisional; Region: PRK13922 643561001026 rod shape-determining protein MreC; Region: MreC; pfam04085 643561001027 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 643561001028 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 643561001029 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 643561001030 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 643561001031 EamA-like transporter family; Region: EamA; pfam00892 643561001032 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 643561001033 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 643561001034 Walker A/P-loop; other site 643561001035 ATP binding site [chemical binding]; other site 643561001036 Q-loop/lid; other site 643561001037 ABC transporter signature motif; other site 643561001038 Walker B; other site 643561001039 D-loop; other site 643561001040 H-loop/switch region; other site 643561001041 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561001042 dimer interface [polypeptide binding]; other site 643561001043 conserved gate region; other site 643561001044 putative PBP binding loops; other site 643561001045 ABC-ATPase subunit interface; other site 643561001046 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643561001047 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 643561001048 substrate binding pocket [chemical binding]; other site 643561001049 membrane-bound complex binding site; other site 643561001050 hinge residues; other site 643561001051 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 643561001052 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 643561001053 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 643561001054 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561001055 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561001056 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_6; cd08423 643561001057 putative dimerization interface [polypeptide binding]; other site 643561001058 hypothetical protein; Provisional; Region: PRK10621 643561001059 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 643561001060 choline dehydrogenase; Validated; Region: PRK02106 643561001061 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 643561001062 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 643561001063 Permease; Region: Permease; pfam02405 643561001064 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 643561001065 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 643561001066 Walker A/P-loop; other site 643561001067 ATP binding site [chemical binding]; other site 643561001068 Q-loop/lid; other site 643561001069 ABC transporter signature motif; other site 643561001070 Walker B; other site 643561001071 D-loop; other site 643561001072 H-loop/switch region; other site 643561001073 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 643561001074 mce related protein; Region: MCE; pfam02470 643561001075 Protein of unknown function (DUF330); Region: DUF330; cl01135 643561001076 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 643561001077 active site 643561001078 Quinolinate synthetase A protein; Region: NadA; cl00420 643561001079 Secretin and TonB N terminus short domain; Region: STN; smart00965 643561001080 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 643561001081 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 643561001082 N-terminal plug; other site 643561001083 ligand-binding site [chemical binding]; other site 643561001084 FecR protein; Region: FecR; pfam04773 643561001085 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 643561001086 RNA polymerase sigma factor; Reviewed; Region: PRK12527 643561001087 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 643561001088 DNA binding residues [nucleotide binding] 643561001089 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 643561001090 Active Sites [active] 643561001091 hypothetical protein; Provisional; Region: PRK10428 643561001092 Hemerythrin; Region: Hemerythrin; cd12107 643561001093 Fe binding site [ion binding]; other site 643561001094 inner membrane protein; Provisional; Region: PRK11715 643561001095 sensory histidine kinase CreC; Provisional; Region: PRK11100 643561001096 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 643561001097 dimer interface [polypeptide binding]; other site 643561001098 phosphorylation site [posttranslational modification] 643561001099 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 643561001100 ATP binding site [chemical binding]; other site 643561001101 Mg2+ binding site [ion binding]; other site 643561001102 G-X-G motif; other site 643561001103 DNA-binding response regulator CreB; Provisional; Region: PRK11083 643561001104 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561001105 active site 643561001106 phosphorylation site [posttranslational modification] 643561001107 intermolecular recognition site; other site 643561001108 dimerization interface [polypeptide binding]; other site 643561001109 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 643561001110 DNA binding site [nucleotide binding] 643561001111 MarC family integral membrane protein; Region: MarC; cl00919 643561001112 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 643561001113 classical (c) SDRs; Region: SDR_c; cd05233 643561001114 NAD(P) binding site [chemical binding]; other site 643561001115 active site 643561001116 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 643561001117 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 643561001118 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 643561001119 putative substrate translocation pore; other site 643561001120 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 643561001121 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 643561001122 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 643561001123 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 643561001124 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 643561001125 MarR family; Region: MarR_2; pfam12802 643561001126 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 643561001127 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 643561001128 catalytic triad [active] 643561001129 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 643561001130 oligomer interface [polypeptide binding]; other site 643561001131 metal binding site [ion binding]; metal-binding site 643561001132 metal binding site [ion binding]; metal-binding site 643561001133 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 643561001134 putative Cl binding site [ion binding]; other site 643561001135 aspartate ring; other site 643561001136 basic sphincter; other site 643561001137 hydrophobic gate; other site 643561001138 periplasmic entrance; other site 643561001139 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 643561001140 dimer interface [polypeptide binding]; other site 643561001141 allosteric magnesium binding site [ion binding]; other site 643561001142 active site 643561001143 aspartate-rich active site metal binding site; other site 643561001144 Schiff base residues; other site 643561001145 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 643561001146 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 643561001147 dimer interface [polypeptide binding]; other site 643561001148 [2Fe-2S] cluster binding site [ion binding]; other site 643561001149 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 643561001150 Serine hydrolase; Region: Ser_hydrolase; cl17834 643561001151 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 643561001152 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 643561001153 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 643561001154 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 643561001155 S17 interaction site [polypeptide binding]; other site 643561001156 S8 interaction site; other site 643561001157 16S rRNA interaction site [nucleotide binding]; other site 643561001158 streptomycin interaction site [chemical binding]; other site 643561001159 23S rRNA interaction site [nucleotide binding]; other site 643561001160 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 643561001161 30S ribosomal protein S7; Validated; Region: PRK05302 643561001162 elongation factor G; Reviewed; Region: PRK00007 643561001163 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 643561001164 G1 box; other site 643561001165 putative GEF interaction site [polypeptide binding]; other site 643561001166 GTP/Mg2+ binding site [chemical binding]; other site 643561001167 Switch I region; other site 643561001168 G2 box; other site 643561001169 G3 box; other site 643561001170 Switch II region; other site 643561001171 G4 box; other site 643561001172 G5 box; other site 643561001173 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 643561001174 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 643561001175 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 643561001176 elongation factor Tu; Reviewed; Region: PRK00049 643561001177 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 643561001178 G1 box; other site 643561001179 GEF interaction site [polypeptide binding]; other site 643561001180 GTP/Mg2+ binding site [chemical binding]; other site 643561001181 Switch I region; other site 643561001182 G2 box; other site 643561001183 G3 box; other site 643561001184 Switch II region; other site 643561001185 G4 box; other site 643561001186 G5 box; other site 643561001187 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 643561001188 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 643561001189 Antibiotic Binding Site [chemical binding]; other site 643561001190 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 643561001191 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 643561001192 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 643561001193 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 643561001194 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 643561001195 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 643561001196 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 643561001197 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 643561001198 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 643561001199 putative translocon binding site; other site 643561001200 protein-rRNA interface [nucleotide binding]; other site 643561001201 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 643561001202 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 643561001203 G-X-X-G motif; other site 643561001204 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 643561001205 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 643561001206 23S rRNA interface [nucleotide binding]; other site 643561001207 5S rRNA interface [nucleotide binding]; other site 643561001208 putative antibiotic binding site [chemical binding]; other site 643561001209 L25 interface [polypeptide binding]; other site 643561001210 L27 interface [polypeptide binding]; other site 643561001211 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 643561001212 23S rRNA interface [nucleotide binding]; other site 643561001213 putative translocon interaction site; other site 643561001214 signal recognition particle (SRP54) interaction site; other site 643561001215 L23 interface [polypeptide binding]; other site 643561001216 trigger factor interaction site; other site 643561001217 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 643561001218 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 643561001219 catalytic triad [active] 643561001220 dimer interface [polypeptide binding]; other site 643561001221 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 643561001222 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 643561001223 Coenzyme A binding pocket [chemical binding]; other site 643561001224 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 643561001225 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 643561001226 catalytic residues [active] 643561001227 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 643561001228 active pocket/dimerization site; other site 643561001229 active site 643561001230 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 643561001231 dimerization domain swap beta strand [polypeptide binding]; other site 643561001232 regulatory protein interface [polypeptide binding]; other site 643561001233 active site 643561001234 regulatory phosphorylation site [posttranslational modification]; other site 643561001235 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 643561001236 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 643561001237 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 643561001238 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 643561001239 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 643561001240 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 643561001241 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 643561001242 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 643561001243 sensor protein KdpD; Provisional; Region: PRK10490 643561001244 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 643561001245 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 643561001246 Ligand Binding Site [chemical binding]; other site 643561001247 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 643561001248 GAF domain; Region: GAF_3; pfam13492 643561001249 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 643561001250 dimer interface [polypeptide binding]; other site 643561001251 phosphorylation site [posttranslational modification] 643561001252 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 643561001253 ATP binding site [chemical binding]; other site 643561001254 Mg2+ binding site [ion binding]; other site 643561001255 G-X-G motif; other site 643561001256 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 643561001257 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561001258 active site 643561001259 phosphorylation site [posttranslational modification] 643561001260 intermolecular recognition site; other site 643561001261 dimerization interface [polypeptide binding]; other site 643561001262 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 643561001263 DNA binding site [nucleotide binding] 643561001264 IPTL-CTERM protein sorting domain; Region: IPTL_CTERM; TIGR04174 643561001265 lipoyl synthase; Provisional; Region: PRK05481 643561001266 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 643561001267 FeS/SAM binding site; other site 643561001268 lipoate-protein ligase B; Provisional; Region: PRK14346 643561001269 Protein of unknown function (DUF493); Region: DUF493; cl01102 643561001270 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 643561001271 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 643561001272 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 643561001273 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 643561001274 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 643561001275 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 643561001276 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 643561001277 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 643561001278 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 643561001279 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 643561001280 beta subunit interaction interface [polypeptide binding]; other site 643561001281 Walker A motif; other site 643561001282 ATP binding site [chemical binding]; other site 643561001283 Walker B motif; other site 643561001284 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 643561001285 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 643561001286 core domain interface [polypeptide binding]; other site 643561001287 delta subunit interface [polypeptide binding]; other site 643561001288 epsilon subunit interface [polypeptide binding]; other site 643561001289 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 643561001290 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 643561001291 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 643561001292 alpha subunit interaction interface [polypeptide binding]; other site 643561001293 Walker A motif; other site 643561001294 ATP binding site [chemical binding]; other site 643561001295 Walker B motif; other site 643561001296 inhibitor binding site; inhibition site 643561001297 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 643561001298 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 643561001299 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 643561001300 gamma subunit interface [polypeptide binding]; other site 643561001301 epsilon subunit interface [polypeptide binding]; other site 643561001302 LBP interface [polypeptide binding]; other site 643561001303 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 643561001304 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 643561001305 ATP-dependent DNA ligase; Validated; Region: PRK09247 643561001306 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 643561001307 active site 643561001308 DNA binding site [nucleotide binding] 643561001309 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 643561001310 DNA binding site [nucleotide binding] 643561001311 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 643561001312 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 643561001313 ATP binding site [chemical binding]; other site 643561001314 putative Mg++ binding site [ion binding]; other site 643561001315 nucleotide binding region [chemical binding]; other site 643561001316 helicase superfamily c-terminal domain; Region: HELICc; smart00490 643561001317 ATP-binding site [chemical binding]; other site 643561001318 DEAD/H associated; Region: DEAD_assoc; pfam08494 643561001319 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 643561001320 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 643561001321 putative active site [active] 643561001322 putative metal binding site [ion binding]; other site 643561001323 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 643561001324 Repair protein; Region: Repair_PSII; pfam04536 643561001325 Repair protein; Region: Repair_PSII; pfam04536 643561001326 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 643561001327 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 643561001328 SnoaL-like domain; Region: SnoaL_3; pfam13474 643561001329 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 643561001330 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 643561001331 Cytochrome c; Region: Cytochrom_C; cl11414 643561001332 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 643561001333 cyclically-permuted mutarotase family protein; Region: mutarot_permut; TIGR03548 643561001334 Galactose oxidase, central domain; Region: Kelch_3; pfam13415 643561001335 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 643561001336 Galactose oxidase, central domain; Region: Kelch_3; pfam13415 643561001337 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 643561001338 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 643561001339 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 643561001340 HlyD family secretion protein; Region: HlyD_3; pfam13437 643561001341 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 643561001342 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643561001343 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 643561001344 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 643561001345 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 643561001346 putative active site [active] 643561001347 putative dimer interface [polypeptide binding]; other site 643561001348 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 643561001349 putative substrate translocation pore; other site 643561001350 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 643561001351 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 643561001352 active site 1 [active] 643561001353 dimer interface [polypeptide binding]; other site 643561001354 hexamer interface [polypeptide binding]; other site 643561001355 active site 2 [active] 643561001356 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 643561001357 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 643561001358 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 643561001359 dimerization interface [polypeptide binding]; other site 643561001360 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561001361 dimer interface [polypeptide binding]; other site 643561001362 putative CheW interface [polypeptide binding]; other site 643561001363 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 643561001364 active site 643561001365 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561001366 transcriptional activator TtdR; Provisional; Region: PRK09801 643561001367 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 643561001368 putative effector binding pocket; other site 643561001369 dimerization interface [polypeptide binding]; other site 643561001370 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 643561001371 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 643561001372 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 643561001373 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 643561001374 Trp docking motif [polypeptide binding]; other site 643561001375 putative active site [active] 643561001376 Predicted membrane protein (DUF2214); Region: DUF2214; pfam09980 643561001377 psiF repeat; Region: PsiF_repeat; pfam07769 643561001378 psiF repeat; Region: PsiF_repeat; pfam07769 643561001379 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 643561001380 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 643561001381 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 643561001382 active site 643561001383 HIGH motif; other site 643561001384 nucleotide binding site [chemical binding]; other site 643561001385 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 643561001386 KMSK motif region; other site 643561001387 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 643561001388 tRNA binding surface [nucleotide binding]; other site 643561001389 anticodon binding site; other site 643561001390 Sporulation related domain; Region: SPOR; pfam05036 643561001391 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 643561001392 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 643561001393 catalytic residues [active] 643561001394 hinge region; other site 643561001395 alpha helical domain; other site 643561001396 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 643561001397 OstA-like protein; Region: OstA; pfam03968 643561001398 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 643561001399 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 643561001400 Walker A/P-loop; other site 643561001401 ATP binding site [chemical binding]; other site 643561001402 Q-loop/lid; other site 643561001403 ABC transporter signature motif; other site 643561001404 Walker B; other site 643561001405 D-loop; other site 643561001406 H-loop/switch region; other site 643561001407 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 643561001408 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 643561001409 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 643561001410 TspO/MBR family; Region: TspO_MBR; pfam03073 643561001411 Cache domain; Region: Cache_1; pfam02743 643561001412 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 643561001413 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 643561001414 dimerization interface [polypeptide binding]; other site 643561001415 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561001416 dimer interface [polypeptide binding]; other site 643561001417 putative CheW interface [polypeptide binding]; other site 643561001418 Cache domain; Region: Cache_1; pfam02743 643561001419 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 643561001420 dimerization interface [polypeptide binding]; other site 643561001421 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561001422 dimer interface [polypeptide binding]; other site 643561001423 putative CheW interface [polypeptide binding]; other site 643561001424 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 643561001425 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 643561001426 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 643561001427 PIN domain; Region: PIN_3; pfam13470 643561001428 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 643561001429 heme ABC exporter, ATP-binding protein CcmA; Region: ccmA; TIGR01189 643561001430 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 643561001431 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 643561001432 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 643561001433 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 643561001434 Sulfate transporter family; Region: Sulfate_transp; pfam00916 643561001435 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 643561001436 CHASE3 domain; Region: CHASE3; pfam05227 643561001437 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561001438 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561001439 dimer interface [polypeptide binding]; other site 643561001440 putative CheW interface [polypeptide binding]; other site 643561001441 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 643561001442 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 643561001443 tetramer interfaces [polypeptide binding]; other site 643561001444 binuclear metal-binding site [ion binding]; other site 643561001445 conserved hypothetical protein; Region: TIGR02231 643561001446 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 643561001447 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 643561001448 thiamine monophosphate kinase; Provisional; Region: PRK05731 643561001449 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 643561001450 ATP binding site [chemical binding]; other site 643561001451 dimerization interface [polypeptide binding]; other site 643561001452 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 643561001453 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 643561001454 ligand binding site [chemical binding]; other site 643561001455 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561001456 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 643561001457 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 643561001458 phosphate binding site [ion binding]; other site 643561001459 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561001460 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561001461 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 643561001462 dimerization interface [polypeptide binding]; other site 643561001463 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 643561001464 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 643561001465 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 643561001466 Site-specific recombinase; Region: SpecificRecomb; pfam10136 643561001467 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 643561001468 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 643561001469 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 643561001470 substrate binding site [chemical binding]; other site 643561001471 hexamer interface [polypeptide binding]; other site 643561001472 metal binding site [ion binding]; metal-binding site 643561001473 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 643561001474 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 643561001475 motif II; other site 643561001476 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 643561001477 anthranilate synthase component I; Provisional; Region: PRK13565 643561001478 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 643561001479 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 643561001480 Chorismate mutase type II; Region: CM_2; smart00830 643561001481 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 643561001482 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 643561001483 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 643561001484 DNA binding site [nucleotide binding] 643561001485 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 643561001486 type III secretion system protein YscR; Provisional; Region: PRK12797 643561001487 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 643561001488 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 643561001489 Type III secretion protein (HpaP); Region: HpaP; pfam09483 643561001490 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 643561001491 FHIPEP family; Region: FHIPEP; pfam00771 643561001492 type III secretion system protein HrcU; Validated; Region: PRK09108 643561001493 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 643561001494 Bacterial export proteins, family 1; Region: Bac_export_1; pfam01311 643561001495 Pectate lyase; Region: Pectate_lyase; pfam03211 643561001496 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 643561001497 Substrate binding site [chemical binding]; other site 643561001498 RIB43A; Region: RIB43A; pfam05914 643561001499 type III secretion system ATPase; Provisional; Region: PRK09099 643561001500 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 643561001501 Walker A motif; other site 643561001502 ATP binding site [chemical binding]; other site 643561001503 Walker B motif; other site 643561001504 type III secretion system protein; Reviewed; Region: PRK06937 643561001505 Bacterial type III secretion protein (HrpB4); Region: HrpB4; pfam09502 643561001506 type III secretion protein HrpB4; Region: HrpB4; TIGR02560 643561001507 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 643561001508 Bacterial type III secretion protein (HrpB2); Region: HrpB2; pfam09487 643561001509 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 643561001510 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 643561001511 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 643561001512 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 643561001513 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 643561001514 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 643561001515 S-adenosylmethionine binding site [chemical binding]; other site 643561001516 Methyltransferase domain; Region: Methyltransf_31; pfam13847 643561001517 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 643561001518 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 643561001519 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 643561001520 N-acetyl-D-glucosamine binding site [chemical binding]; other site 643561001521 catalytic residue [active] 643561001522 type III secretion protein HrpB1/HrpK; Region: HrpB1_HrpK; TIGR02561 643561001523 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 643561001524 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 643561001525 glutamine binding [chemical binding]; other site 643561001526 catalytic triad [active] 643561001527 DinB family; Region: DinB; cl17821 643561001528 DinB superfamily; Region: DinB_2; pfam12867 643561001529 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 643561001530 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 643561001531 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 643561001532 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 643561001533 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 643561001534 active site 643561001535 phosphate binding site [ion binding]; other site 643561001536 ribulose/triose binding site [chemical binding]; other site 643561001537 substrate (anthranilate) binding pocket [chemical binding]; other site 643561001538 product (indole) binding pocket [chemical binding]; other site 643561001539 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 643561001540 ligand binding site [chemical binding]; other site 643561001541 active site 643561001542 UGI interface [polypeptide binding]; other site 643561001543 catalytic site [active] 643561001544 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 643561001545 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 643561001546 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 643561001547 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 643561001548 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 643561001549 amidase catalytic site [active] 643561001550 Zn binding residues [ion binding]; other site 643561001551 substrate binding site [chemical binding]; other site 643561001552 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 643561001553 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 643561001554 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 643561001555 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 643561001556 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643561001557 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 643561001558 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 643561001559 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643561001560 Zn2+ binding site [ion binding]; other site 643561001561 Mg2+ binding site [ion binding]; other site 643561001562 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 643561001563 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 643561001564 generic binding surface II; other site 643561001565 ssDNA binding site; other site 643561001566 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 643561001567 ATP binding site [chemical binding]; other site 643561001568 putative Mg++ binding site [ion binding]; other site 643561001569 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 643561001570 nucleotide binding region [chemical binding]; other site 643561001571 ATP-binding site [chemical binding]; other site 643561001572 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 643561001573 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561001574 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 643561001575 dimerization interface [polypeptide binding]; other site 643561001576 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 643561001577 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 643561001578 dimerization interface [polypeptide binding]; other site 643561001579 DPS ferroxidase diiron center [ion binding]; other site 643561001580 ion pore; other site 643561001581 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 643561001582 UbiA prenyltransferase family; Region: UbiA; pfam01040 643561001583 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 643561001584 putative active site [active] 643561001585 YdjC motif; other site 643561001586 Mg binding site [ion binding]; other site 643561001587 putative homodimer interface [polypeptide binding]; other site 643561001588 GtrA-like protein; Region: GtrA; pfam04138 643561001589 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 643561001590 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 643561001591 pyrroline-5-carboxylate reductase; Region: PLN02688 643561001592 glycerol kinase; Provisional; Region: glpK; PRK00047 643561001593 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 643561001594 N- and C-terminal domain interface [polypeptide binding]; other site 643561001595 active site 643561001596 MgATP binding site [chemical binding]; other site 643561001597 catalytic site [active] 643561001598 metal binding site [ion binding]; metal-binding site 643561001599 glycerol binding site [chemical binding]; other site 643561001600 homotetramer interface [polypeptide binding]; other site 643561001601 homodimer interface [polypeptide binding]; other site 643561001602 FBP binding site [chemical binding]; other site 643561001603 protein IIAGlc interface [polypeptide binding]; other site 643561001604 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 643561001605 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 643561001606 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 643561001607 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 643561001608 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 643561001609 Walker A/P-loop; other site 643561001610 ATP binding site [chemical binding]; other site 643561001611 Q-loop/lid; other site 643561001612 ABC transporter signature motif; other site 643561001613 Walker B; other site 643561001614 D-loop; other site 643561001615 H-loop/switch region; other site 643561001616 TOBE domain; Region: TOBE_2; pfam08402 643561001617 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 643561001618 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 643561001619 Walker A/P-loop; other site 643561001620 ATP binding site [chemical binding]; other site 643561001621 Q-loop/lid; other site 643561001622 ABC transporter signature motif; other site 643561001623 Walker B; other site 643561001624 D-loop; other site 643561001625 H-loop/switch region; other site 643561001626 TOBE domain; Region: TOBE_2; pfam08402 643561001627 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561001628 putative PBP binding loops; other site 643561001629 ABC-ATPase subunit interface; other site 643561001630 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 643561001631 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561001632 dimer interface [polypeptide binding]; other site 643561001633 conserved gate region; other site 643561001634 putative PBP binding loops; other site 643561001635 ABC-ATPase subunit interface; other site 643561001636 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 643561001637 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 643561001638 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 643561001639 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 643561001640 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 643561001641 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 643561001642 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 643561001643 RNA binding site [nucleotide binding]; other site 643561001644 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 643561001645 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 643561001646 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 643561001647 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 643561001648 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 643561001649 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 643561001650 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 643561001651 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 643561001652 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 643561001653 5S rRNA interface [nucleotide binding]; other site 643561001654 23S rRNA interface [nucleotide binding]; other site 643561001655 L5 interface [polypeptide binding]; other site 643561001656 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 643561001657 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 643561001658 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 643561001659 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 643561001660 23S rRNA binding site [nucleotide binding]; other site 643561001661 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 643561001662 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 643561001663 SecY translocase; Region: SecY; pfam00344 643561001664 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 643561001665 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 643561001666 30S ribosomal protein S13; Region: bact_S13; TIGR03631 643561001667 30S ribosomal protein S11; Validated; Region: PRK05309 643561001668 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 643561001669 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 643561001670 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 643561001671 RNA binding surface [nucleotide binding]; other site 643561001672 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 643561001673 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 643561001674 alphaNTD homodimer interface [polypeptide binding]; other site 643561001675 alphaNTD - beta interaction site [polypeptide binding]; other site 643561001676 alphaNTD - beta' interaction site [polypeptide binding]; other site 643561001677 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 643561001678 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 643561001679 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 643561001680 putative chaperone; Provisional; Region: PRK11678 643561001681 nucleotide binding site [chemical binding]; other site 643561001682 putative NEF/HSP70 interaction site [polypeptide binding]; other site 643561001683 SBD interface [polypeptide binding]; other site 643561001684 Predicted methyltransferases [General function prediction only]; Region: COG0313 643561001685 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 643561001686 putative SAM binding site [chemical binding]; other site 643561001687 putative homodimer interface [polypeptide binding]; other site 643561001688 hypothetical protein; Provisional; Region: PRK14673 643561001689 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 643561001690 dimer interface [polypeptide binding]; other site 643561001691 active site 643561001692 BON domain; Region: BON; pfam04972 643561001693 BON domain; Region: BON; pfam04972 643561001694 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 643561001695 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 643561001696 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 643561001697 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 643561001698 Walker A motif; other site 643561001699 ATP binding site [chemical binding]; other site 643561001700 Walker B motif; other site 643561001701 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 643561001702 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 643561001703 ligand binding site [chemical binding]; other site 643561001704 flexible hinge region; other site 643561001705 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 643561001706 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 643561001707 Walker A motif; other site 643561001708 ATP binding site [chemical binding]; other site 643561001709 Walker B motif; other site 643561001710 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 643561001711 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 643561001712 catalytic residue [active] 643561001713 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 643561001714 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 643561001715 tetramer interface [polypeptide binding]; other site 643561001716 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561001717 catalytic residue [active] 643561001718 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 643561001719 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 643561001720 catalytic residue [active] 643561001721 Protein of unknown function (DUF445); Region: DUF445; pfam04286 643561001722 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 643561001723 FAD binding domain; Region: FAD_binding_4; pfam01565 643561001724 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 643561001725 Family description; Region: UvrD_C_2; pfam13538 643561001726 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 643561001727 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561001728 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 643561001729 dimerization interface [polypeptide binding]; other site 643561001730 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 643561001731 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 643561001732 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 643561001733 putative active site [active] 643561001734 putative substrate binding site [chemical binding]; other site 643561001735 putative cosubstrate binding site; other site 643561001736 catalytic site [active] 643561001737 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 643561001738 PAS domain; Region: PAS_9; pfam13426 643561001739 putative active site [active] 643561001740 heme pocket [chemical binding]; other site 643561001741 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561001742 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561001743 metal binding site [ion binding]; metal-binding site 643561001744 active site 643561001745 I-site; other site 643561001746 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 643561001747 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 643561001748 MgtC family; Region: MgtC; pfam02308 643561001749 Protein of unknown function, DUF399; Region: DUF399; pfam04187 643561001750 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 643561001751 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 643561001752 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 643561001753 dimerization interface [polypeptide binding]; other site 643561001754 GAF domain; Region: GAF; pfam01590 643561001755 Histidine kinase; Region: HisKA_3; pfam07730 643561001756 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 643561001757 ATP binding site [chemical binding]; other site 643561001758 Mg2+ binding site [ion binding]; other site 643561001759 G-X-G motif; other site 643561001760 transcriptional regulator NarL; Provisional; Region: PRK10651 643561001761 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561001762 active site 643561001763 phosphorylation site [posttranslational modification] 643561001764 intermolecular recognition site; other site 643561001765 dimerization interface [polypeptide binding]; other site 643561001766 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 643561001767 DNA binding residues [nucleotide binding] 643561001768 dimerization interface [polypeptide binding]; other site 643561001769 XamI restriction endonuclease; Region: RE_XamI; pfam09572 643561001770 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 643561001771 S-adenosylmethionine binding site [chemical binding]; other site 643561001772 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 643561001773 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 643561001774 putative substrate translocation pore; other site 643561001775 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 643561001776 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 643561001777 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 643561001778 [4Fe-4S] binding site [ion binding]; other site 643561001779 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 643561001780 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 643561001781 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 643561001782 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 643561001783 molybdopterin cofactor binding site; other site 643561001784 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 643561001785 4Fe-4S binding domain; Region: Fer4; cl02805 643561001786 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 643561001787 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 643561001788 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 643561001789 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 643561001790 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 643561001791 active site clefts [active] 643561001792 zinc binding site [ion binding]; other site 643561001793 dimer interface [polypeptide binding]; other site 643561001794 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 643561001795 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 643561001796 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 643561001797 protein-splicing catalytic site; other site 643561001798 thioester formation/cholesterol transfer; other site 643561001799 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 643561001800 Hint (Hedgehog/Intein) domain C-terminal region; Region: HintC; smart00305 643561001801 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 643561001802 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 643561001803 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 643561001804 Hemerythrin-like domain; Region: Hr-like; cd12108 643561001805 Fe binding site [ion binding]; other site 643561001806 Cupin domain; Region: Cupin_2; pfam07883 643561001807 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 643561001808 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 643561001809 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 643561001810 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 643561001811 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 643561001812 Transcriptional regulator [Transcription]; Region: IclR; COG1414 643561001813 Bacterial transcriptional regulator; Region: IclR; pfam01614 643561001814 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 643561001815 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 643561001816 TraB family; Region: TraB; pfam01963 643561001817 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561001818 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561001819 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561001820 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 643561001821 putative effector binding pocket; other site 643561001822 putative dimerization interface [polypeptide binding]; other site 643561001823 phenylcoumaran benzylic ether reductase (PCBER) like, atypical (a) SDRs; Region: PCBER_SDR_a; cd05259 643561001824 NmrA-like family; Region: NmrA; pfam05368 643561001825 NAD(P) binding site [chemical binding]; other site 643561001826 active site lysine 643561001827 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 643561001828 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 643561001829 potential catalytic triad [active] 643561001830 conserved cys residue [active] 643561001831 HEAT repeats; Region: HEAT_2; pfam13646 643561001832 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 643561001833 Kelch domain; Region: Kelch; smart00612 643561001834 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 643561001835 Kelch domain; Region: Kelch; smart00612 643561001836 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 643561001837 Kelch domain; Region: Kelch; smart00612 643561001838 Galactose oxidase, central domain; Region: Kelch_3; cl02701 643561001839 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 643561001840 Galactose oxidase, central domain; Region: Kelch_3; pfam13415 643561001841 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 643561001842 Kelch domain; Region: Kelch; smart00612 643561001843 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 643561001844 Kelch domain; Region: Kelch; smart00612 643561001845 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 643561001846 Galactose oxidase, central domain; Region: Kelch_3; cl02701 643561001847 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 643561001848 Interdomain contacts; other site 643561001849 Cytokine receptor motif; other site 643561001850 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 643561001851 EamA-like transporter family; Region: EamA; pfam00892 643561001852 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 643561001853 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 643561001854 non-specific DNA binding site [nucleotide binding]; other site 643561001855 salt bridge; other site 643561001856 sequence-specific DNA binding site [nucleotide binding]; other site 643561001857 Cupin domain; Region: Cupin_2; pfam07883 643561001858 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 643561001859 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 643561001860 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 643561001861 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 643561001862 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 643561001863 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 643561001864 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 643561001865 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 643561001866 Transposase domain (DUF772); Region: DUF772; pfam05598 643561001867 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 643561001868 DDE superfamily endonuclease; Region: DDE_4; cl17710 643561001869 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 643561001870 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 643561001871 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 643561001872 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 643561001873 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 643561001874 Domain of unknown function (DUF1910); Region: DUF1910; pfam08928 643561001875 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 643561001876 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 643561001877 Domain of unknown function (DUF1910); Region: DUF1910; pfam08928 643561001878 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 643561001879 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 643561001880 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 643561001881 DctM-like transporters; Region: DctM; pfam06808 643561001882 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 643561001883 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 643561001884 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 643561001885 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 643561001886 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 643561001887 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 643561001888 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 643561001889 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561001890 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 643561001891 dimerization interface [polypeptide binding]; other site 643561001892 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 643561001893 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561001894 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 643561001895 dimerization interface [polypeptide binding]; other site 643561001896 Pirin-related protein [General function prediction only]; Region: COG1741 643561001897 Pirin; Region: Pirin; pfam02678 643561001898 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 643561001899 catalytic triad [active] 643561001900 dimer interface [polypeptide binding]; other site 643561001901 Isochorismatase family; Region: Isochorismatase; pfam00857 643561001902 conserved cis-peptide bond; other site 643561001903 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 643561001904 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 643561001905 active site 643561001906 Transmembrane secretion effector; Region: MFS_3; pfam05977 643561001907 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 643561001908 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 643561001909 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 643561001910 putative [4Fe-4S] binding site [ion binding]; other site 643561001911 putative molybdopterin cofactor binding site [chemical binding]; other site 643561001912 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 643561001913 putative molybdopterin cofactor binding site; other site 643561001914 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 643561001915 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 643561001916 putative ligand binding site [chemical binding]; other site 643561001917 acetylornithine deacetylase; Provisional; Region: PRK07522 643561001918 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 643561001919 metal binding site [ion binding]; metal-binding site 643561001920 putative dimer interface [polypeptide binding]; other site 643561001921 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 643561001922 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 643561001923 metal binding site [ion binding]; metal-binding site 643561001924 putative dimer interface [polypeptide binding]; other site 643561001925 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 643561001926 putative active site [active] 643561001927 Zn binding site [ion binding]; other site 643561001928 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 643561001929 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561001930 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561001931 dimer interface [polypeptide binding]; other site 643561001932 putative CheW interface [polypeptide binding]; other site 643561001933 Acyl CoA binding protein; Region: ACBP; pfam00887 643561001934 acyl-CoA binding pocket [chemical binding]; other site 643561001935 CoA binding site [chemical binding]; other site 643561001936 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 643561001937 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 643561001938 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 643561001939 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 643561001940 S-adenosylmethionine binding site [chemical binding]; other site 643561001941 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 643561001942 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561001943 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561001944 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 643561001945 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 643561001946 acyl-activating enzyme (AAE) consensus motif; other site 643561001947 active site 643561001948 AMP binding site [chemical binding]; other site 643561001949 CoA binding site [chemical binding]; other site 643561001950 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 643561001951 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 643561001952 Walker A/P-loop; other site 643561001953 ATP binding site [chemical binding]; other site 643561001954 Q-loop/lid; other site 643561001955 ABC transporter signature motif; other site 643561001956 Walker B; other site 643561001957 D-loop; other site 643561001958 H-loop/switch region; other site 643561001959 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 643561001960 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 643561001961 putative ligand binding site [chemical binding]; other site 643561001962 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 643561001963 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 643561001964 TM-ABC transporter signature motif; other site 643561001965 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643561001966 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 643561001967 TM-ABC transporter signature motif; other site 643561001968 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 643561001969 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 643561001970 Walker A/P-loop; other site 643561001971 ATP binding site [chemical binding]; other site 643561001972 Q-loop/lid; other site 643561001973 ABC transporter signature motif; other site 643561001974 Walker B; other site 643561001975 D-loop; other site 643561001976 H-loop/switch region; other site 643561001977 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 643561001978 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 643561001979 acyl-activating enzyme (AAE) consensus motif; other site 643561001980 putative AMP binding site [chemical binding]; other site 643561001981 putative active site [active] 643561001982 putative CoA binding site [chemical binding]; other site 643561001983 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 643561001984 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 643561001985 Walker A motif; other site 643561001986 ATP binding site [chemical binding]; other site 643561001987 Walker B motif; other site 643561001988 arginine finger; other site 643561001989 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; cl08267 643561001990 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 643561001991 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 643561001992 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 643561001993 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 643561001994 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 643561001995 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; cl08267 643561001996 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 643561001997 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 643561001998 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 643561001999 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 643561002000 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 643561002001 Peptidase family M48; Region: Peptidase_M48; cl12018 643561002002 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 643561002003 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 643561002004 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 643561002005 RNA binding surface [nucleotide binding]; other site 643561002006 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 643561002007 active site 643561002008 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 643561002009 nudix motif; other site 643561002010 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 643561002011 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 643561002012 hypothetical protein; Provisional; Region: PRK07538 643561002013 MarR family; Region: MarR_2; pfam12802 643561002014 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561002015 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 643561002016 Chromate transporter; Region: Chromate_transp; pfam02417 643561002017 Predicted transcriptional regulators [Transcription]; Region: COG1733 643561002018 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 643561002019 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 643561002020 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 643561002021 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 643561002022 NADH(P)-binding; Region: NAD_binding_10; pfam13460 643561002023 NAD binding site [chemical binding]; other site 643561002024 substrate binding site [chemical binding]; other site 643561002025 putative active site [active] 643561002026 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 643561002027 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 643561002028 catalytic residues [active] 643561002029 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 643561002030 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 643561002031 C-terminal domain interface [polypeptide binding]; other site 643561002032 GSH binding site (G-site) [chemical binding]; other site 643561002033 dimer interface [polypeptide binding]; other site 643561002034 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 643561002035 dimer interface [polypeptide binding]; other site 643561002036 N-terminal domain interface [polypeptide binding]; other site 643561002037 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 643561002038 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 643561002039 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 643561002040 Protein of unknown function, DUF484; Region: DUF484; cl17449 643561002041 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 643561002042 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 643561002043 active site 643561002044 DNA binding site [nucleotide binding] 643561002045 Int/Topo IB signature motif; other site 643561002046 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 643561002047 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 643561002048 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 643561002049 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561002050 dimer interface [polypeptide binding]; other site 643561002051 putative CheW interface [polypeptide binding]; other site 643561002052 PUA domain; Region: PUA; cl00607 643561002053 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 643561002054 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 643561002055 putative RNA binding site [nucleotide binding]; other site 643561002056 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 643561002057 S-adenosylmethionine binding site [chemical binding]; other site 643561002058 PAS fold; Region: PAS_7; pfam12860 643561002059 PAS fold; Region: PAS_7; pfam12860 643561002060 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561002061 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561002062 metal binding site [ion binding]; metal-binding site 643561002063 active site 643561002064 I-site; other site 643561002065 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 643561002066 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 643561002067 P-loop, Walker A motif; other site 643561002068 Base recognition motif; other site 643561002069 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 643561002070 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 643561002071 STAS domain; Region: STAS_2; pfam13466 643561002072 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 643561002073 active site 643561002074 HslU subunit interaction site [polypeptide binding]; other site 643561002075 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 643561002076 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 643561002077 Walker A motif; other site 643561002078 ATP binding site [chemical binding]; other site 643561002079 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 643561002080 Walker B motif; other site 643561002081 arginine finger; other site 643561002082 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 643561002083 cell division protein MraZ; Reviewed; Region: PRK00326 643561002084 MraZ protein; Region: MraZ; pfam02381 643561002085 MraZ protein; Region: MraZ; pfam02381 643561002086 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 643561002087 MraW methylase family; Region: Methyltransf_5; cl17771 643561002088 Cell division protein FtsL; Region: FtsL; pfam04999 643561002089 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 643561002090 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 643561002091 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 643561002092 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 643561002093 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 643561002094 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 643561002095 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 643561002096 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 643561002097 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 643561002098 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 643561002099 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 643561002100 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 643561002101 Mg++ binding site [ion binding]; other site 643561002102 putative catalytic motif [active] 643561002103 putative substrate binding site [chemical binding]; other site 643561002104 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 643561002105 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 643561002106 cell division protein FtsW; Region: ftsW; TIGR02614 643561002107 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 643561002108 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 643561002109 active site 643561002110 homodimer interface [polypeptide binding]; other site 643561002111 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 643561002112 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 643561002113 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 643561002114 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 643561002115 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 643561002116 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 643561002117 ATP-grasp domain; Region: ATP-grasp_4; cl17255 643561002118 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 643561002119 Cell division protein FtsQ; Region: FtsQ; pfam03799 643561002120 cell division protein FtsA; Region: ftsA; TIGR01174 643561002121 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 643561002122 nucleotide binding site [chemical binding]; other site 643561002123 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 643561002124 Cell division protein FtsA; Region: FtsA; pfam14450 643561002125 cell division protein FtsZ; Validated; Region: PRK09330 643561002126 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 643561002127 nucleotide binding site [chemical binding]; other site 643561002128 SulA interaction site; other site 643561002129 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 643561002130 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 643561002131 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 643561002132 ThiC-associated domain; Region: ThiC-associated; pfam13667 643561002133 ThiC family; Region: ThiC; pfam01964 643561002134 HAMP domain; Region: HAMP; pfam00672 643561002135 dimerization interface [polypeptide binding]; other site 643561002136 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561002137 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561002138 dimer interface [polypeptide binding]; other site 643561002139 putative CheW interface [polypeptide binding]; other site 643561002140 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 643561002141 dimerization interface [polypeptide binding]; other site 643561002142 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561002143 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561002144 dimer interface [polypeptide binding]; other site 643561002145 putative CheW interface [polypeptide binding]; other site 643561002146 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 643561002147 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 643561002148 active site 643561002149 putative DNA-binding cleft [nucleotide binding]; other site 643561002150 dimer interface [polypeptide binding]; other site 643561002151 Cytidylyltransferase family; Region: CTP_transf_1; cl17467 643561002152 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 643561002153 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 643561002154 putative acyl-acceptor binding pocket; other site 643561002155 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 643561002156 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 643561002157 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561002158 Cupin domain; Region: Cupin_2; pfam07883 643561002159 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 643561002160 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 643561002161 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 643561002162 Bacterial transcriptional regulator; Region: IclR; pfam01614 643561002163 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 643561002164 Transglycosylase; Region: Transgly; cl17702 643561002165 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 643561002166 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 643561002167 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 643561002168 NAD(P) binding site [chemical binding]; other site 643561002169 shikimate binding site; other site 643561002170 TonB C terminal; Region: TonB_2; pfam13103 643561002171 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 643561002172 RNB domain; Region: RNB; pfam00773 643561002173 O-Antigen ligase; Region: Wzy_C; pfam04932 643561002174 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 643561002175 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 643561002176 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 643561002177 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 643561002178 amidase; Provisional; Region: PRK07056 643561002179 Amidase; Region: Amidase; cl11426 643561002180 protease TldD; Provisional; Region: tldD; PRK10735 643561002181 Protein of unknown function (DUF3792); Region: DUF3792; cl14821 643561002182 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 643561002183 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 643561002184 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 643561002185 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 643561002186 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 643561002187 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 643561002188 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 643561002189 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 643561002190 catalytic residues [active] 643561002191 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 643561002192 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 643561002193 carboxyltransferase (CT) interaction site; other site 643561002194 biotinylation site [posttranslational modification]; other site 643561002195 pyruvate carboxylase subunit A; Validated; Region: PRK08654 643561002196 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 643561002197 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 643561002198 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 643561002199 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 643561002200 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 643561002201 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 643561002202 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 643561002203 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 643561002204 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 643561002205 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 643561002206 substrate binding site [chemical binding]; other site 643561002207 ATP binding site [chemical binding]; other site 643561002208 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 643561002209 dimer interface [polypeptide binding]; other site 643561002210 putative radical transfer pathway; other site 643561002211 diiron center [ion binding]; other site 643561002212 tyrosyl radical; other site 643561002213 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 643561002214 ATP cone domain; Region: ATP-cone; pfam03477 643561002215 ATP cone domain; Region: ATP-cone; pfam03477 643561002216 Class I ribonucleotide reductase; Region: RNR_I; cd01679 643561002217 active site 643561002218 dimer interface [polypeptide binding]; other site 643561002219 catalytic residues [active] 643561002220 effector binding site; other site 643561002221 R2 peptide binding site; other site 643561002222 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 643561002223 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 643561002224 amidase catalytic site [active] 643561002225 Zn binding residues [ion binding]; other site 643561002226 substrate binding site [chemical binding]; other site 643561002227 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 643561002228 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561002229 active site 643561002230 phosphorylation site [posttranslational modification] 643561002231 intermolecular recognition site; other site 643561002232 dimerization interface [polypeptide binding]; other site 643561002233 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 643561002234 Walker A motif; other site 643561002235 ATP binding site [chemical binding]; other site 643561002236 Walker B motif; other site 643561002237 arginine finger; other site 643561002238 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 643561002239 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 643561002240 PAS domain; Region: PAS; smart00091 643561002241 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 643561002242 dimer interface [polypeptide binding]; other site 643561002243 phosphorylation site [posttranslational modification] 643561002244 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 643561002245 ATP binding site [chemical binding]; other site 643561002246 Mg2+ binding site [ion binding]; other site 643561002247 G-X-G motif; other site 643561002248 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 643561002249 signal recognition particle protein; Provisional; Region: PRK10867 643561002250 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 643561002251 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 643561002252 Signal peptide binding domain; Region: SRP_SPB; pfam02978 643561002253 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 643561002254 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 643561002255 Ligand binding site; other site 643561002256 DXD motif; other site 643561002257 response regulator GlrR; Provisional; Region: PRK15115 643561002258 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561002259 active site 643561002260 phosphorylation site [posttranslational modification] 643561002261 intermolecular recognition site; other site 643561002262 dimerization interface [polypeptide binding]; other site 643561002263 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 643561002264 Walker A motif; other site 643561002265 ATP binding site [chemical binding]; other site 643561002266 Walker B motif; other site 643561002267 arginine finger; other site 643561002268 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 643561002269 dimer interface [polypeptide binding]; other site 643561002270 phosphorylation site [posttranslational modification] 643561002271 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 643561002272 ATP binding site [chemical binding]; other site 643561002273 Mg2+ binding site [ion binding]; other site 643561002274 G-X-G motif; other site 643561002275 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 643561002276 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 643561002277 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 643561002278 FeS/SAM binding site; other site 643561002279 TRAM domain; Region: TRAM; pfam01938 643561002280 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 643561002281 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 643561002282 Coenzyme A binding pocket [chemical binding]; other site 643561002283 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 643561002284 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 643561002285 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 643561002286 Secretin and TonB N terminus short domain; Region: STN; smart00965 643561002287 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 643561002288 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 643561002289 N-terminal plug; other site 643561002290 ligand-binding site [chemical binding]; other site 643561002291 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 643561002292 FecR protein; Region: FecR; pfam04773 643561002293 RNA polymerase sigma factor; Reviewed; Region: PRK12523 643561002294 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 643561002295 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 643561002296 DNA binding residues [nucleotide binding] 643561002297 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 643561002298 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561002299 active site 643561002300 phosphorylation site [posttranslational modification] 643561002301 intermolecular recognition site; other site 643561002302 dimerization interface [polypeptide binding]; other site 643561002303 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 643561002304 DNA binding site [nucleotide binding] 643561002305 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 643561002306 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 643561002307 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 643561002308 dimer interface [polypeptide binding]; other site 643561002309 phosphorylation site [posttranslational modification] 643561002310 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 643561002311 ATP binding site [chemical binding]; other site 643561002312 G-X-G motif; other site 643561002313 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 643561002314 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 643561002315 HlyD family secretion protein; Region: HlyD_3; pfam13437 643561002316 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 643561002317 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 643561002318 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 643561002319 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 643561002320 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 643561002321 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 643561002322 Walker A/P-loop; other site 643561002323 ATP binding site [chemical binding]; other site 643561002324 Q-loop/lid; other site 643561002325 ABC transporter signature motif; other site 643561002326 Walker B; other site 643561002327 D-loop; other site 643561002328 H-loop/switch region; other site 643561002329 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 643561002330 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 643561002331 Flavin binding site [chemical binding]; other site 643561002332 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 643561002333 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 643561002334 putative ligand binding site [chemical binding]; other site 643561002335 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 643561002336 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 643561002337 TM-ABC transporter signature motif; other site 643561002338 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 643561002339 TM-ABC transporter signature motif; other site 643561002340 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 643561002341 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 643561002342 Walker A/P-loop; other site 643561002343 ATP binding site [chemical binding]; other site 643561002344 Q-loop/lid; other site 643561002345 ABC transporter signature motif; other site 643561002346 Walker B; other site 643561002347 D-loop; other site 643561002348 H-loop/switch region; other site 643561002349 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 643561002350 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 643561002351 active site 643561002352 dimer interface [polypeptide binding]; other site 643561002353 non-prolyl cis peptide bond; other site 643561002354 insertion regions; other site 643561002355 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 643561002356 FMN reductase, MsuE subfamily; Region: FMN_reduc_MsuE; TIGR03566 643561002357 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 643561002358 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 643561002359 active site 643561002360 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 643561002361 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 643561002362 Flavin binding site [chemical binding]; other site 643561002363 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 643561002364 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 643561002365 Walker A motif; other site 643561002366 ATP binding site [chemical binding]; other site 643561002367 Walker B motif; other site 643561002368 arginine finger; other site 643561002369 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 643561002370 enoyl-CoA hydratase; Provisional; Region: PRK05862 643561002371 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 643561002372 substrate binding site [chemical binding]; other site 643561002373 oxyanion hole (OAH) forming residues; other site 643561002374 trimer interface [polypeptide binding]; other site 643561002375 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 643561002376 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 643561002377 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 643561002378 protein binding site [polypeptide binding]; other site 643561002379 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 643561002380 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 643561002381 dimerization domain [polypeptide binding]; other site 643561002382 dimer interface [polypeptide binding]; other site 643561002383 catalytic residues [active] 643561002384 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 643561002385 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 643561002386 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 643561002387 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 643561002388 MOSC domain; Region: MOSC; pfam03473 643561002389 GTP-binding protein YchF; Reviewed; Region: PRK09601 643561002390 YchF GTPase; Region: YchF; cd01900 643561002391 G1 box; other site 643561002392 GTP/Mg2+ binding site [chemical binding]; other site 643561002393 Switch I region; other site 643561002394 G2 box; other site 643561002395 Switch II region; other site 643561002396 G3 box; other site 643561002397 G4 box; other site 643561002398 G5 box; other site 643561002399 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 643561002400 Divergent AAA domain; Region: AAA_4; pfam04326 643561002401 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 643561002402 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 643561002403 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 643561002404 HPP family; Region: HPP; pfam04982 643561002405 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 643561002406 Predicted permeases [General function prediction only]; Region: RarD; COG2962 643561002407 Predicted membrane protein [Function unknown]; Region: COG1238 643561002408 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561002409 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561002410 metal binding site [ion binding]; metal-binding site 643561002411 active site 643561002412 I-site; other site 643561002413 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 643561002414 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 643561002415 FMN binding site [chemical binding]; other site 643561002416 active site 643561002417 catalytic residues [active] 643561002418 substrate binding site [chemical binding]; other site 643561002419 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 643561002420 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 643561002421 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 643561002422 purine monophosphate binding site [chemical binding]; other site 643561002423 dimer interface [polypeptide binding]; other site 643561002424 putative catalytic residues [active] 643561002425 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 643561002426 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 643561002427 Pectate lyase; Region: Pectate_lyase; pfam03211 643561002428 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 643561002429 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 643561002430 inhibitor-cofactor binding pocket; inhibition site 643561002431 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561002432 catalytic residue [active] 643561002433 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 643561002434 substrate binding site [chemical binding]; other site 643561002435 ATP binding site [chemical binding]; other site 643561002436 Rubredoxin [Energy production and conversion]; Region: COG1773 643561002437 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 643561002438 iron binding site [ion binding]; other site 643561002439 Response regulator receiver domain; Region: Response_reg; pfam00072 643561002440 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561002441 active site 643561002442 phosphorylation site [posttranslational modification] 643561002443 intermolecular recognition site; other site 643561002444 dimerization interface [polypeptide binding]; other site 643561002445 Response regulator receiver domain; Region: Response_reg; pfam00072 643561002446 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561002447 active site 643561002448 phosphorylation site [posttranslational modification] 643561002449 intermolecular recognition site; other site 643561002450 dimerization interface [polypeptide binding]; other site 643561002451 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 643561002452 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 643561002453 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561002454 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561002455 dimer interface [polypeptide binding]; other site 643561002456 putative CheW interface [polypeptide binding]; other site 643561002457 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 643561002458 putative binding surface; other site 643561002459 active site 643561002460 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 643561002461 putative binding surface; other site 643561002462 active site 643561002463 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 643561002464 putative binding surface; other site 643561002465 active site 643561002466 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 643561002467 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 643561002468 ATP binding site [chemical binding]; other site 643561002469 Mg2+ binding site [ion binding]; other site 643561002470 G-X-G motif; other site 643561002471 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 643561002472 Response regulator receiver domain; Region: Response_reg; pfam00072 643561002473 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561002474 active site 643561002475 phosphorylation site [posttranslational modification] 643561002476 intermolecular recognition site; other site 643561002477 dimerization interface [polypeptide binding]; other site 643561002478 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 643561002479 DNA photolyase; Region: DNA_photolyase; pfam00875 643561002480 hypothetical protein; Validated; Region: PRK00228 643561002481 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 643561002482 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 643561002483 active site 643561002484 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 643561002485 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 643561002486 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 643561002487 dihydroorotase; Provisional; Region: PRK07627 643561002488 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 643561002489 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 643561002490 active site 643561002491 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 643561002492 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 643561002493 putative acyl-acceptor binding pocket; other site 643561002494 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 643561002495 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 643561002496 putative DNA binding site [nucleotide binding]; other site 643561002497 putative Zn2+ binding site [ion binding]; other site 643561002498 AsnC family; Region: AsnC_trans_reg; pfam01037 643561002499 Biofilm formation and stress response factor; Region: BsmA; pfam10014 643561002500 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 643561002501 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 643561002502 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 643561002503 Walker A/P-loop; other site 643561002504 ATP binding site [chemical binding]; other site 643561002505 Q-loop/lid; other site 643561002506 ABC transporter signature motif; other site 643561002507 Walker B; other site 643561002508 D-loop; other site 643561002509 H-loop/switch region; other site 643561002510 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 643561002511 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 643561002512 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 643561002513 ArsC family; Region: ArsC; pfam03960 643561002514 catalytic residues [active] 643561002515 type II secretion system protein E; Region: type_II_gspE; TIGR02533 643561002516 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 643561002517 Walker A motif; other site 643561002518 ATP binding site [chemical binding]; other site 643561002519 Walker B motif; other site 643561002520 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 643561002521 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 643561002522 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 643561002523 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 643561002524 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 643561002525 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 643561002526 GspL periplasmic domain; Region: GspL_C; cl14909 643561002527 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 643561002528 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 643561002529 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 643561002530 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 643561002531 Prokaryotic N-terminal methylation motif; Region: N_methyl; pfam07963 643561002532 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 643561002533 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 643561002534 cobalamin synthase; Reviewed; Region: cobS; PRK00235 643561002535 threonine dehydratase; Reviewed; Region: PRK09224 643561002536 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 643561002537 tetramer interface [polypeptide binding]; other site 643561002538 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561002539 catalytic residue [active] 643561002540 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 643561002541 putative Ile/Val binding site [chemical binding]; other site 643561002542 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 643561002543 putative Ile/Val binding site [chemical binding]; other site 643561002544 OsmC-like protein; Region: OsmC; cl00767 643561002545 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 643561002546 diiron binding motif [ion binding]; other site 643561002547 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 643561002548 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 643561002549 trimer interface [polypeptide binding]; other site 643561002550 eyelet of channel; other site 643561002551 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 643561002552 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 643561002553 trimer interface [polypeptide binding]; other site 643561002554 eyelet of channel; other site 643561002555 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 643561002556 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561002557 dimer interface [polypeptide binding]; other site 643561002558 conserved gate region; other site 643561002559 putative PBP binding loops; other site 643561002560 ABC-ATPase subunit interface; other site 643561002561 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 643561002562 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 643561002563 metal binding site [ion binding]; metal-binding site 643561002564 putative dimer interface [polypeptide binding]; other site 643561002565 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 643561002566 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 643561002567 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 643561002568 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561002569 dimer interface [polypeptide binding]; other site 643561002570 conserved gate region; other site 643561002571 putative PBP binding loops; other site 643561002572 ABC-ATPase subunit interface; other site 643561002573 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 643561002574 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 643561002575 Walker A/P-loop; other site 643561002576 ATP binding site [chemical binding]; other site 643561002577 Q-loop/lid; other site 643561002578 ABC transporter signature motif; other site 643561002579 Walker B; other site 643561002580 D-loop; other site 643561002581 H-loop/switch region; other site 643561002582 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 643561002583 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 643561002584 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 643561002585 Walker A/P-loop; other site 643561002586 ATP binding site [chemical binding]; other site 643561002587 Q-loop/lid; other site 643561002588 ABC transporter signature motif; other site 643561002589 Walker B; other site 643561002590 D-loop; other site 643561002591 H-loop/switch region; other site 643561002592 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 643561002593 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 643561002594 HAMP domain; Region: HAMP; pfam00672 643561002595 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561002596 dimer interface [polypeptide binding]; other site 643561002597 putative CheW interface [polypeptide binding]; other site 643561002598 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643561002599 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643561002600 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 643561002601 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 643561002602 dimer interface [polypeptide binding]; other site 643561002603 active site 643561002604 Predicted Zn-dependent protease (DUF2268); Region: DUF2268; cl02316 643561002605 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 643561002606 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 643561002607 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 643561002608 putative active site [active] 643561002609 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 643561002610 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 643561002611 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 643561002612 transaldolase-like protein; Provisional; Region: PTZ00411 643561002613 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 643561002614 active site 643561002615 dimer interface [polypeptide binding]; other site 643561002616 catalytic residue [active] 643561002617 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 643561002618 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 643561002619 active site 643561002620 dimer interface [polypeptide binding]; other site 643561002621 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 643561002622 dimer interface [polypeptide binding]; other site 643561002623 active site 643561002624 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 643561002625 dimerization interface [polypeptide binding]; other site 643561002626 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561002627 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561002628 dimer interface [polypeptide binding]; other site 643561002629 putative CheW interface [polypeptide binding]; other site 643561002630 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 643561002631 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 643561002632 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 643561002633 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 643561002634 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561002635 putative PBP binding loops; other site 643561002636 dimer interface [polypeptide binding]; other site 643561002637 ABC-ATPase subunit interface; other site 643561002638 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 643561002639 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561002640 dimer interface [polypeptide binding]; other site 643561002641 conserved gate region; other site 643561002642 putative PBP binding loops; other site 643561002643 ABC-ATPase subunit interface; other site 643561002644 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 643561002645 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 643561002646 Walker A/P-loop; other site 643561002647 ATP binding site [chemical binding]; other site 643561002648 Q-loop/lid; other site 643561002649 ABC transporter signature motif; other site 643561002650 Walker B; other site 643561002651 D-loop; other site 643561002652 H-loop/switch region; other site 643561002653 TOBE domain; Region: TOBE_2; pfam08402 643561002654 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 643561002655 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 643561002656 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 643561002657 sorbitol dehydrogenase; Provisional; Region: PRK07067 643561002658 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643561002659 NAD(P) binding site [chemical binding]; other site 643561002660 active site 643561002661 Class I aldolases; Region: Aldolase_Class_I; cl17187 643561002662 catalytic residue [active] 643561002663 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 643561002664 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 643561002665 putative substrate binding site [chemical binding]; other site 643561002666 putative ATP binding site [chemical binding]; other site 643561002667 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 643561002668 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 643561002669 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643561002670 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 643561002671 N- and C-terminal domain interface [polypeptide binding]; other site 643561002672 L-fuculokinase; Region: fuculo_kin_coli; TIGR02628 643561002673 active site 643561002674 MgATP binding site [chemical binding]; other site 643561002675 catalytic site [active] 643561002676 metal binding site [ion binding]; metal-binding site 643561002677 xylulose binding site [chemical binding]; other site 643561002678 homodimer interface [polypeptide binding]; other site 643561002679 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 643561002680 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 643561002681 ring oligomerisation interface [polypeptide binding]; other site 643561002682 ATP/Mg binding site [chemical binding]; other site 643561002683 stacking interactions; other site 643561002684 hinge regions; other site 643561002685 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 643561002686 oligomerisation interface [polypeptide binding]; other site 643561002687 mobile loop; other site 643561002688 roof hairpin; other site 643561002689 elongation factor G; Reviewed; Region: PRK00007 643561002690 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 643561002691 G1 box; other site 643561002692 putative GEF interaction site [polypeptide binding]; other site 643561002693 GTP/Mg2+ binding site [chemical binding]; other site 643561002694 Switch I region; other site 643561002695 G2 box; other site 643561002696 G3 box; other site 643561002697 Switch II region; other site 643561002698 G4 box; other site 643561002699 G5 box; other site 643561002700 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 643561002701 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 643561002702 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 643561002703 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 643561002704 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 643561002705 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 643561002706 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 643561002707 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 643561002708 Substrate binding site; other site 643561002709 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 643561002710 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 643561002711 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 643561002712 Ligand binding site; other site 643561002713 Putative Catalytic site; other site 643561002714 DXD motif; other site 643561002715 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 643561002716 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 643561002717 active site 643561002718 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 643561002719 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 643561002720 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 643561002721 inhibitor-cofactor binding pocket; inhibition site 643561002722 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561002723 catalytic residue [active] 643561002724 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 643561002725 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 643561002726 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 643561002727 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 643561002728 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 643561002729 NADP-binding site; other site 643561002730 homotetramer interface [polypeptide binding]; other site 643561002731 substrate binding site [chemical binding]; other site 643561002732 homodimer interface [polypeptide binding]; other site 643561002733 active site 643561002734 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643561002735 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 643561002736 NAD(P) binding site [chemical binding]; other site 643561002737 active site 643561002738 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 643561002739 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 643561002740 inhibitor-cofactor binding pocket; inhibition site 643561002741 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561002742 catalytic residue [active] 643561002743 Predicted membrane protein (DUF2079); Region: DUF2079; pfam09852 643561002744 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 643561002745 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 643561002746 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 643561002747 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 643561002748 putative ADP-binding pocket [chemical binding]; other site 643561002749 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 643561002750 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 643561002751 putative ADP-binding pocket [chemical binding]; other site 643561002752 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 643561002753 active site 643561002754 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 643561002755 binding surface 643561002756 TPR motif; other site 643561002757 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 643561002758 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643561002759 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 643561002760 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 643561002761 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 643561002762 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 643561002763 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 643561002764 homodimer interface [polypeptide binding]; other site 643561002765 active site 643561002766 FMN binding site [chemical binding]; other site 643561002767 substrate binding site [chemical binding]; other site 643561002768 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 643561002769 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 643561002770 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 643561002771 Na binding site [ion binding]; other site 643561002772 putative substrate binding site [chemical binding]; other site 643561002773 phenylhydantoinase; Validated; Region: PRK08323 643561002774 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 643561002775 tetramer interface [polypeptide binding]; other site 643561002776 active site 643561002777 allantoate amidohydrolase; Reviewed; Region: PRK12893 643561002778 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 643561002779 active site 643561002780 metal binding site [ion binding]; metal-binding site 643561002781 dimer interface [polypeptide binding]; other site 643561002782 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 643561002783 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 643561002784 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 643561002785 active site 643561002786 nucleotide binding site [chemical binding]; other site 643561002787 HIGH motif; other site 643561002788 KMSKS motif; other site 643561002789 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 643561002790 nudix motif; other site 643561002791 NAD synthetase; Provisional; Region: PRK13981 643561002792 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 643561002793 multimer interface [polypeptide binding]; other site 643561002794 active site 643561002795 catalytic triad [active] 643561002796 protein interface 1 [polypeptide binding]; other site 643561002797 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 643561002798 homodimer interface [polypeptide binding]; other site 643561002799 NAD binding pocket [chemical binding]; other site 643561002800 ATP binding pocket [chemical binding]; other site 643561002801 Mg binding site [ion binding]; other site 643561002802 active-site loop [active] 643561002803 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 643561002804 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 643561002805 active site 643561002806 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 643561002807 catalytic triad [active] 643561002808 conserved cis-peptide bond; other site 643561002809 S-adenosylmethionine synthetase; Validated; Region: PRK05250 643561002810 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 643561002811 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 643561002812 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 643561002813 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 643561002814 putative acyl-acceptor binding pocket; other site 643561002815 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 643561002816 putative acyl-acceptor binding pocket; other site 643561002817 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 643561002818 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 643561002819 G1 box; other site 643561002820 GTP/Mg2+ binding site [chemical binding]; other site 643561002821 Switch I region; other site 643561002822 G2 box; other site 643561002823 G3 box; other site 643561002824 Switch II region; other site 643561002825 G4 box; other site 643561002826 G5 box; other site 643561002827 Cytochrome c553 [Energy production and conversion]; Region: COG2863 643561002828 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 643561002829 Cytochrome c; Region: Cytochrom_C; cl11414 643561002830 ResB-like family; Region: ResB; pfam05140 643561002831 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 643561002832 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 643561002833 ResB-like family; Region: ResB; pfam05140 643561002834 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 643561002835 TMAO/DMSO reductase; Reviewed; Region: PRK05363 643561002836 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 643561002837 Moco binding site; other site 643561002838 metal coordination site [ion binding]; other site 643561002839 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 643561002840 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 643561002841 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 643561002842 diaminopimelate decarboxylase; Region: lysA; TIGR01048 643561002843 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 643561002844 active site 643561002845 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 643561002846 substrate binding site [chemical binding]; other site 643561002847 catalytic residues [active] 643561002848 dimer interface [polypeptide binding]; other site 643561002849 Frataxin-like domain; Region: Frataxin_Cyay; pfam01491 643561002850 putative iron binding site [ion binding]; other site 643561002851 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 643561002852 Transglycosylase; Region: Transgly; pfam00912 643561002853 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 643561002854 Competence protein A; Region: Competence_A; pfam11104 643561002855 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 643561002856 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 643561002857 nucleotide binding site [chemical binding]; other site 643561002858 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 643561002859 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 643561002860 Pilus assembly protein, PilO; Region: PilO; pfam04350 643561002861 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 643561002862 Pilus assembly protein, PilP; Region: PilP; pfam04351 643561002863 AMIN domain; Region: AMIN; pfam11741 643561002864 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 643561002865 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 643561002866 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 643561002867 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 643561002868 shikimate kinase; Reviewed; Region: aroK; PRK00131 643561002869 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 643561002870 ADP binding site [chemical binding]; other site 643561002871 magnesium binding site [ion binding]; other site 643561002872 putative shikimate binding site; other site 643561002873 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 643561002874 active site 643561002875 dimer interface [polypeptide binding]; other site 643561002876 metal binding site [ion binding]; metal-binding site 643561002877 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 643561002878 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643561002879 Zn2+ binding site [ion binding]; other site 643561002880 Mg2+ binding site [ion binding]; other site 643561002881 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 643561002882 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 643561002883 Methyltransferase domain; Region: Methyltransf_32; pfam13679 643561002884 Methyltransferase domain; Region: Methyltransf_31; pfam13847 643561002885 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 643561002886 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 643561002887 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 643561002888 active site 643561002889 dimer interface [polypeptide binding]; other site 643561002890 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 643561002891 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 643561002892 active site 643561002893 FMN binding site [chemical binding]; other site 643561002894 substrate binding site [chemical binding]; other site 643561002895 3Fe-4S cluster binding site [ion binding]; other site 643561002896 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 643561002897 domain interface; other site 643561002898 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 643561002899 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 643561002900 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643561002901 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 643561002902 substrate binding pocket [chemical binding]; other site 643561002903 membrane-bound complex binding site; other site 643561002904 hinge residues; other site 643561002905 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 643561002906 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561002907 dimer interface [polypeptide binding]; other site 643561002908 conserved gate region; other site 643561002909 putative PBP binding loops; other site 643561002910 ABC-ATPase subunit interface; other site 643561002911 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 643561002912 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 643561002913 Walker A/P-loop; other site 643561002914 ATP binding site [chemical binding]; other site 643561002915 Q-loop/lid; other site 643561002916 ABC transporter signature motif; other site 643561002917 Walker B; other site 643561002918 D-loop; other site 643561002919 H-loop/switch region; other site 643561002920 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 643561002921 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 643561002922 Walker A/P-loop; other site 643561002923 ATP binding site [chemical binding]; other site 643561002924 Q-loop/lid; other site 643561002925 ABC transporter signature motif; other site 643561002926 Walker B; other site 643561002927 D-loop; other site 643561002928 H-loop/switch region; other site 643561002929 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 643561002930 Permease; Region: Permease; pfam02405 643561002931 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 643561002932 mce related protein; Region: MCE; pfam02470 643561002933 VacJ like lipoprotein; Region: VacJ; cl01073 643561002934 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 643561002935 STAS domain; Region: STAS_2; pfam13466 643561002936 Domain of unknown function (DUF4034); Region: DUF4034; pfam13226 643561002937 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 643561002938 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 643561002939 Walker A/P-loop; other site 643561002940 ATP binding site [chemical binding]; other site 643561002941 Q-loop/lid; other site 643561002942 ABC transporter signature motif; other site 643561002943 Walker B; other site 643561002944 D-loop; other site 643561002945 H-loop/switch region; other site 643561002946 ABC-2 type transporter; Region: ABC2_membrane; cl17235 643561002947 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 643561002948 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 643561002949 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 643561002950 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 643561002951 hinge; other site 643561002952 active site 643561002953 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 643561002954 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 643561002955 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 643561002956 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 643561002957 NAD binding site [chemical binding]; other site 643561002958 dimerization interface [polypeptide binding]; other site 643561002959 product binding site; other site 643561002960 substrate binding site [chemical binding]; other site 643561002961 zinc binding site [ion binding]; other site 643561002962 catalytic residues [active] 643561002963 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 643561002964 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 643561002965 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643561002966 DNA-binding site [nucleotide binding]; DNA binding site 643561002967 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 643561002968 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561002969 homodimer interface [polypeptide binding]; other site 643561002970 catalytic residue [active] 643561002971 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 643561002972 putative active site [active] 643561002973 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 643561002974 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 643561002975 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561002976 homodimer interface [polypeptide binding]; other site 643561002977 catalytic residue [active] 643561002978 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 643561002979 putative active site pocket [active] 643561002980 4-fold oligomerization interface [polypeptide binding]; other site 643561002981 metal binding residues [ion binding]; metal-binding site 643561002982 3-fold/trimer interface [polypeptide binding]; other site 643561002983 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 643561002984 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 643561002985 putative active site [active] 643561002986 oxyanion strand; other site 643561002987 catalytic triad [active] 643561002988 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 643561002989 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 643561002990 catalytic residues [active] 643561002991 Spherulation-specific family 4; Region: Spherulin4; pfam12138 643561002992 Spherulation-specific family 4; Region: Spherulin4; pfam12138 643561002993 Predicted membrane protein [Function unknown]; Region: COG4267 643561002994 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 643561002995 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 643561002996 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 643561002997 TPR motif; other site 643561002998 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 643561002999 GAF domain; Region: GAF_3; pfam13492 643561003000 Tetratricopeptide repeat; Region: TPR_15; pfam13429 643561003001 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 643561003002 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 643561003003 putative active site [active] 643561003004 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 643561003005 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 643561003006 NAD binding site [chemical binding]; other site 643561003007 homodimer interface [polypeptide binding]; other site 643561003008 active site 643561003009 substrate binding site [chemical binding]; other site 643561003010 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 643561003011 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 643561003012 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 643561003013 active site 643561003014 phosphate binding residues; other site 643561003015 catalytic residues [active] 643561003016 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 643561003017 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 643561003018 substrate binding site [chemical binding]; other site 643561003019 glutamase interaction surface [polypeptide binding]; other site 643561003020 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 643561003021 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 643561003022 metal binding site [ion binding]; metal-binding site 643561003023 Predicted membrane protein [Function unknown]; Region: COG3671 643561003024 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 643561003025 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 643561003026 active site 643561003027 nucleophile elbow; other site 643561003028 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 643561003029 nucleotide binding site/active site [active] 643561003030 HIT family signature motif; other site 643561003031 catalytic residue [active] 643561003032 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 643561003033 sec-independent translocase; Provisional; Region: tatB; PRK01919 643561003034 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 643561003035 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 643561003036 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 643561003037 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 643561003038 Caspase domain; Region: Peptidase_C14; pfam00656 643561003039 Predicted GTPases [General function prediction only]; Region: COG1162 643561003040 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 643561003041 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 643561003042 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 643561003043 protein binding site [polypeptide binding]; other site 643561003044 metabolite-proton symporter; Region: 2A0106; TIGR00883 643561003045 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 643561003046 putative substrate translocation pore; other site 643561003047 Cysteine dioxygenase type I; Region: CDO_I; pfam05995 643561003048 Uncharacterized conserved protein [Function unknown]; Region: COG0327 643561003049 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 643561003050 von Willebrand factor type A domain; Region: VWA_2; pfam13519 643561003051 metal ion-dependent adhesion site (MIDAS); other site 643561003052 Protein of unknown function DUF58; Region: DUF58; pfam01882 643561003053 MoxR-like ATPases [General function prediction only]; Region: COG0714 643561003054 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 643561003055 Walker A motif; other site 643561003056 ATP binding site [chemical binding]; other site 643561003057 Walker B motif; other site 643561003058 arginine finger; other site 643561003059 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 643561003060 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 643561003061 active site 643561003062 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 643561003063 putative active site [active] 643561003064 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 643561003065 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 643561003066 type II secretion system protein E; Region: type_II_gspE; TIGR02533 643561003067 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 643561003068 Walker A motif; other site 643561003069 ATP binding site [chemical binding]; other site 643561003070 Walker B motif; other site 643561003071 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 643561003072 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 643561003073 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 643561003074 EamA-like transporter family; Region: EamA; pfam00892 643561003075 EamA-like transporter family; Region: EamA; pfam00892 643561003076 short chain dehydrogenase; Provisional; Region: PRK08339 643561003077 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 643561003078 putative NAD(P) binding site [chemical binding]; other site 643561003079 putative active site [active] 643561003080 Pseudomonas putida Aldehyde dehydrogenase AlkH-like; Region: ALDH_AlkH-like; cd07134 643561003081 NAD(P) binding site [chemical binding]; other site 643561003082 catalytic residues [active] 643561003083 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 643561003084 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 643561003085 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 643561003086 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 643561003087 catalytic residue [active] 643561003088 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 643561003089 intersubunit interface [polypeptide binding]; other site 643561003090 active site 643561003091 Zn2+ binding site [ion binding]; other site 643561003092 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 643561003093 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_2; cd07805 643561003094 N- and C-terminal domain interface [polypeptide binding]; other site 643561003095 active site 643561003096 MgATP binding site [chemical binding]; other site 643561003097 catalytic site [active] 643561003098 metal binding site [ion binding]; metal-binding site 643561003099 xylulose binding site [chemical binding]; other site 643561003100 putative homodimer interface [polypeptide binding]; other site 643561003101 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 643561003102 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 643561003103 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 643561003104 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643561003105 NAD(P) binding site [chemical binding]; other site 643561003106 active site 643561003107 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643561003108 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643561003109 UreD urease accessory protein; Region: UreD; pfam01774 643561003110 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 643561003111 nucleoside/Zn binding site; other site 643561003112 dimer interface [polypeptide binding]; other site 643561003113 catalytic motif [active] 643561003114 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 643561003115 NMT1/THI5 like; Region: NMT1; pfam09084 643561003116 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 643561003117 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 643561003118 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 643561003119 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 643561003120 rRNA binding site [nucleotide binding]; other site 643561003121 predicted 30S ribosome binding site; other site 643561003122 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 643561003123 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 643561003124 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643561003125 NAD(P) binding site [chemical binding]; other site 643561003126 active site 643561003127 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643561003128 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 643561003129 Walker A/P-loop; other site 643561003130 ATP binding site [chemical binding]; other site 643561003131 Q-loop/lid; other site 643561003132 ABC transporter signature motif; other site 643561003133 Walker B; other site 643561003134 D-loop; other site 643561003135 H-loop/switch region; other site 643561003136 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 643561003137 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561003138 dimer interface [polypeptide binding]; other site 643561003139 conserved gate region; other site 643561003140 putative PBP binding loops; other site 643561003141 ABC-ATPase subunit interface; other site 643561003142 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 643561003143 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 643561003144 Walker A/P-loop; other site 643561003145 ATP binding site [chemical binding]; other site 643561003146 Q-loop/lid; other site 643561003147 ABC transporter signature motif; other site 643561003148 Walker B; other site 643561003149 D-loop; other site 643561003150 H-loop/switch region; other site 643561003151 NMT1/THI5 like; Region: NMT1; pfam09084 643561003152 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 643561003153 nucleoside/Zn binding site; other site 643561003154 dimer interface [polypeptide binding]; other site 643561003155 catalytic motif [active] 643561003156 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 643561003157 Malic enzyme, N-terminal domain; Region: malic; pfam00390 643561003158 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 643561003159 putative NAD(P) binding site [chemical binding]; other site 643561003160 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 643561003161 xanthine permease; Region: pbuX; TIGR03173 643561003162 Transcriptional regulators [Transcription]; Region: GntR; COG1802 643561003163 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643561003164 DNA-binding site [nucleotide binding]; DNA binding site 643561003165 FCD domain; Region: FCD; pfam07729 643561003166 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 643561003167 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 643561003168 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 643561003169 Na binding site [ion binding]; other site 643561003170 putative substrate binding site [chemical binding]; other site 643561003171 Transcriptional regulators [Transcription]; Region: FadR; COG2186 643561003172 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643561003173 DNA-binding site [nucleotide binding]; DNA binding site 643561003174 FCD domain; Region: FCD; pfam07729 643561003175 Cache domain; Region: Cache_1; pfam02743 643561003176 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 643561003177 dimerization interface [polypeptide binding]; other site 643561003178 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561003179 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561003180 dimer interface [polypeptide binding]; other site 643561003181 putative CheW interface [polypeptide binding]; other site 643561003182 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 643561003183 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 643561003184 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 643561003185 dimer interface [polypeptide binding]; other site 643561003186 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 643561003187 active site 643561003188 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 643561003189 Ligand Binding Site [chemical binding]; other site 643561003190 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 643561003191 HprK-related kinase B; Region: HprK_rel_B; TIGR04355 643561003192 sulfotransferase; Region: PLN02164 643561003193 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 643561003194 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 643561003195 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 643561003196 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643561003197 Walker A/P-loop; other site 643561003198 ATP binding site [chemical binding]; other site 643561003199 Q-loop/lid; other site 643561003200 ABC transporter signature motif; other site 643561003201 Walker B; other site 643561003202 D-loop; other site 643561003203 H-loop/switch region; other site 643561003204 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643561003205 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 643561003206 NAD(P) binding site [chemical binding]; other site 643561003207 active site 643561003208 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 643561003209 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 643561003210 active site 643561003211 dimer interface [polypeptide binding]; other site 643561003212 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 643561003213 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 643561003214 Ligand Binding Site [chemical binding]; other site 643561003215 Molecular Tunnel; other site 643561003216 Methyltransferase domain; Region: Methyltransf_12; pfam08242 643561003217 Methyltransferase domain; Region: Methyltransf_23; pfam13489 643561003218 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 643561003219 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 643561003220 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 643561003221 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 643561003222 O-Antigen ligase; Region: Wzy_C; pfam04932 643561003223 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 643561003224 Bacterial sugar transferase; Region: Bac_transf; pfam02397 643561003225 M20 Zn-peptidases include exopeptidases; Region: M20_like; cd02697 643561003226 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 643561003227 putative metal binding site [ion binding]; other site 643561003228 putative bifunctional OHCU decarboxylase/allantoate amidohydrolase; Provisional; Region: PRK13590 643561003229 OHCU decarboxylase; Region: OHCU_decarbox; pfam09349 643561003230 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 643561003231 active site 643561003232 metal binding site [ion binding]; metal-binding site 643561003233 dimer interface [polypeptide binding]; other site 643561003234 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 643561003235 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 643561003236 active site 643561003237 catalytic site [active] 643561003238 tetramer interface [polypeptide binding]; other site 643561003239 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 643561003240 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643561003241 DNA-binding site [nucleotide binding]; DNA binding site 643561003242 FCD domain; Region: FCD; pfam07729 643561003243 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 643561003244 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 643561003245 MOFRL family; Region: MOFRL; pfam05161 643561003246 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 643561003247 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 643561003248 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 643561003249 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 643561003250 active site 643561003251 homotetramer interface [polypeptide binding]; other site 643561003252 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 643561003253 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 643561003254 XdhC Rossmann domain; Region: XdhC_C; pfam13478 643561003255 Predicted membrane protein [Function unknown]; Region: COG3748 643561003256 Protein of unknown function (DUF989); Region: DUF989; pfam06181 643561003257 Cytochrome c; Region: Cytochrom_C; pfam00034 643561003258 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 643561003259 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 643561003260 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561003261 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561003262 metal binding site [ion binding]; metal-binding site 643561003263 active site 643561003264 I-site; other site 643561003265 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 643561003266 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561003267 active site 643561003268 phosphorylation site [posttranslational modification] 643561003269 intermolecular recognition site; other site 643561003270 dimerization interface [polypeptide binding]; other site 643561003271 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 643561003272 DNA binding residues [nucleotide binding] 643561003273 dimerization interface [polypeptide binding]; other site 643561003274 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 643561003275 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 643561003276 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 643561003277 ATP binding site [chemical binding]; other site 643561003278 Mg2+ binding site [ion binding]; other site 643561003279 G-X-G motif; other site 643561003280 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 643561003281 homotrimer interaction site [polypeptide binding]; other site 643561003282 putative active site [active] 643561003283 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 643561003284 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 643561003285 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 643561003286 catalytic residue [active] 643561003287 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 643561003288 trimer interface [polypeptide binding]; other site 643561003289 eyelet of channel; other site 643561003290 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 643561003291 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 643561003292 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 643561003293 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 643561003294 putative switch regulator; other site 643561003295 non-specific DNA interactions [nucleotide binding]; other site 643561003296 DNA binding site [nucleotide binding] 643561003297 sequence specific DNA binding site [nucleotide binding]; other site 643561003298 putative cAMP binding site [chemical binding]; other site 643561003299 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 643561003300 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 643561003301 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 643561003302 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 643561003303 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 643561003304 PAS domain; Region: PAS_9; pfam13426 643561003305 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 643561003306 putative active site [active] 643561003307 heme pocket [chemical binding]; other site 643561003308 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561003309 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561003310 metal binding site [ion binding]; metal-binding site 643561003311 active site 643561003312 I-site; other site 643561003313 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 643561003314 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 643561003315 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 643561003316 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 643561003317 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 643561003318 catalytic loop [active] 643561003319 iron binding site [ion binding]; other site 643561003320 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 643561003321 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 643561003322 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 643561003323 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 643561003324 Walker A/P-loop; other site 643561003325 ATP binding site [chemical binding]; other site 643561003326 Q-loop/lid; other site 643561003327 ABC transporter signature motif; other site 643561003328 Walker B; other site 643561003329 D-loop; other site 643561003330 H-loop/switch region; other site 643561003331 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 643561003332 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643561003333 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 643561003334 TM-ABC transporter signature motif; other site 643561003335 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 643561003336 TM-ABC transporter signature motif; other site 643561003337 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 643561003338 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 643561003339 putative ligand binding site [chemical binding]; other site 643561003340 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 643561003341 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 643561003342 active site 643561003343 putative substrate binding pocket [chemical binding]; other site 643561003344 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561003345 Predicted amidohydrolase [General function prediction only]; Region: COG0388 643561003346 N-carbamyl-D-amino acid amidohydrolase (DCase, class 6 nitrilases); Region: DCase; cd07569 643561003347 tetramer interface [polypeptide binding]; other site 643561003348 active site 643561003349 catalytic triad [active] 643561003350 dimer interface [polypeptide binding]; other site 643561003351 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561003352 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561003353 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 643561003354 dimerization interface [polypeptide binding]; other site 643561003355 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 643561003356 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 643561003357 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 643561003358 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 643561003359 Walker A/P-loop; other site 643561003360 ATP binding site [chemical binding]; other site 643561003361 Q-loop/lid; other site 643561003362 ABC transporter signature motif; other site 643561003363 Walker B; other site 643561003364 D-loop; other site 643561003365 H-loop/switch region; other site 643561003366 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 643561003367 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561003368 dimer interface [polypeptide binding]; other site 643561003369 conserved gate region; other site 643561003370 putative PBP binding loops; other site 643561003371 ABC-ATPase subunit interface; other site 643561003372 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 643561003373 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643561003374 substrate binding pocket [chemical binding]; other site 643561003375 membrane-bound complex binding site; other site 643561003376 hinge residues; other site 643561003377 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 643561003378 Transcriptional regulator [Transcription]; Region: IclR; COG1414 643561003379 Bacterial transcriptional regulator; Region: IclR; pfam01614 643561003380 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 643561003381 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 643561003382 iron-sulfur cluster [ion binding]; other site 643561003383 [2Fe-2S] cluster binding site [ion binding]; other site 643561003384 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 643561003385 hydrophobic ligand binding site; other site 643561003386 Alkaline and neutral invertase; Region: Glyco_hydro_100; cl17340 643561003387 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 643561003388 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 643561003389 active site 643561003390 purine riboside binding site [chemical binding]; other site 643561003391 Helix-turn-helix domain; Region: HTH_18; pfam12833 643561003392 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643561003393 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 643561003394 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 643561003395 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 643561003396 active site 643561003397 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 643561003398 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 643561003399 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 643561003400 putative ligand binding site [chemical binding]; other site 643561003401 NAD binding site [chemical binding]; other site 643561003402 catalytic site [active] 643561003403 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 643561003404 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 643561003405 putative ligand binding site [chemical binding]; other site 643561003406 guanine deaminase; Provisional; Region: PRK09228 643561003407 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 643561003408 active site 643561003409 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 643561003410 trimer interface [polypeptide binding]; other site 643561003411 active site 643561003412 Predicted metalloprotease [General function prediction only]; Region: COG2321 643561003413 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 643561003414 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 643561003415 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 643561003416 ATP binding site [chemical binding]; other site 643561003417 Mg++ binding site [ion binding]; other site 643561003418 motif III; other site 643561003419 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 643561003420 nucleotide binding region [chemical binding]; other site 643561003421 ATP-binding site [chemical binding]; other site 643561003422 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 643561003423 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 643561003424 active site 643561003425 metal binding site [ion binding]; metal-binding site 643561003426 H-NS histone family; Region: Histone_HNS; pfam00816 643561003427 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 643561003428 aconitate hydratase; Validated; Region: PRK09277 643561003429 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 643561003430 substrate binding site [chemical binding]; other site 643561003431 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 643561003432 ligand binding site [chemical binding]; other site 643561003433 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 643561003434 substrate binding site [chemical binding]; other site 643561003435 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 643561003436 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 643561003437 putative active site [active] 643561003438 heme pocket [chemical binding]; other site 643561003439 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 643561003440 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 643561003441 putative active site [active] 643561003442 heme pocket [chemical binding]; other site 643561003443 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 643561003444 putative active site [active] 643561003445 heme pocket [chemical binding]; other site 643561003446 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561003447 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561003448 metal binding site [ion binding]; metal-binding site 643561003449 active site 643561003450 I-site; other site 643561003451 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 643561003452 PAS fold; Region: PAS_7; pfam12860 643561003453 PAS domain S-box; Region: sensory_box; TIGR00229 643561003454 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 643561003455 putative active site [active] 643561003456 heme pocket [chemical binding]; other site 643561003457 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561003458 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561003459 metal binding site [ion binding]; metal-binding site 643561003460 active site 643561003461 I-site; other site 643561003462 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 643561003463 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 643561003464 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 643561003465 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 643561003466 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 643561003467 kynureninase; Region: kynureninase; TIGR01814 643561003468 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 643561003469 catalytic residue [active] 643561003470 Putative cyclase; Region: Cyclase; cl00814 643561003471 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 643561003472 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 643561003473 putative DNA binding site [nucleotide binding]; other site 643561003474 putative Zn2+ binding site [ion binding]; other site 643561003475 AsnC family; Region: AsnC_trans_reg; pfam01037 643561003476 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 643561003477 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 643561003478 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 643561003479 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 643561003480 G1 box; other site 643561003481 GTP/Mg2+ binding site [chemical binding]; other site 643561003482 Switch I region; other site 643561003483 G2 box; other site 643561003484 G3 box; other site 643561003485 Switch II region; other site 643561003486 G4 box; other site 643561003487 G5 box; other site 643561003488 Nucleoside recognition; Region: Gate; pfam07670 643561003489 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 643561003490 Nucleoside recognition; Region: Gate; pfam07670 643561003491 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 643561003492 ornithine carbamoyltransferase; Provisional; Region: PRK00779 643561003493 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 643561003494 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 643561003495 acetylornithine aminotransferase; Provisional; Region: PRK02627 643561003496 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 643561003497 inhibitor-cofactor binding pocket; inhibition site 643561003498 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561003499 catalytic residue [active] 643561003500 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 643561003501 malate:quinone oxidoreductase; Validated; Region: PRK05257 643561003502 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 643561003503 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 643561003504 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 643561003505 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 643561003506 Uncharacterized conserved protein [Function unknown]; Region: COG2912 643561003507 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 643561003508 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 643561003509 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 643561003510 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 643561003511 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 643561003512 hypothetical protein; Validated; Region: PRK02101 643561003513 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 643561003514 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 643561003515 homodimer interface [polypeptide binding]; other site 643561003516 oligonucleotide binding site [chemical binding]; other site 643561003517 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 643561003518 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 643561003519 RNA binding surface [nucleotide binding]; other site 643561003520 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 643561003521 active site 643561003522 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 643561003523 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 643561003524 motif II; other site 643561003525 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 643561003526 iron-sulfur cluster [ion binding]; other site 643561003527 [2Fe-2S] cluster binding site [ion binding]; other site 643561003528 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 643561003529 tandem repeat interface [polypeptide binding]; other site 643561003530 oligomer interface [polypeptide binding]; other site 643561003531 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 643561003532 active site residues [active] 643561003533 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 643561003534 putative SAM binding site [chemical binding]; other site 643561003535 homodimer interface [polypeptide binding]; other site 643561003536 Maf-like protein; Region: Maf; pfam02545 643561003537 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 643561003538 active site 643561003539 dimer interface [polypeptide binding]; other site 643561003540 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 643561003541 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 643561003542 putative phosphate acyltransferase; Provisional; Region: PRK05331 643561003543 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 643561003544 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 643561003545 dimer interface [polypeptide binding]; other site 643561003546 active site 643561003547 CoA binding pocket [chemical binding]; other site 643561003548 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 643561003549 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 643561003550 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643561003551 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 643561003552 NAD(P) binding site [chemical binding]; other site 643561003553 active site 643561003554 acyl carrier protein; Provisional; Region: acpP; PRK00982 643561003555 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 643561003556 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 643561003557 dimer interface [polypeptide binding]; other site 643561003558 active site 643561003559 Pleckstrin homology-like domain; Region: PH-like; cl17171 643561003560 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 643561003561 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 643561003562 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 643561003563 DNA binding residues [nucleotide binding] 643561003564 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 643561003565 MucB/RseB family; Region: MucB_RseB; pfam03888 643561003566 anti-sigma E factor; Provisional; Region: rseB; PRK09455 643561003567 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 643561003568 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 643561003569 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 643561003570 protein binding site [polypeptide binding]; other site 643561003571 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 643561003572 GTP-binding protein LepA; Provisional; Region: PRK05433 643561003573 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 643561003574 G1 box; other site 643561003575 putative GEF interaction site [polypeptide binding]; other site 643561003576 GTP/Mg2+ binding site [chemical binding]; other site 643561003577 Switch I region; other site 643561003578 G2 box; other site 643561003579 G3 box; other site 643561003580 Switch II region; other site 643561003581 G4 box; other site 643561003582 G5 box; other site 643561003583 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 643561003584 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 643561003585 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 643561003586 signal peptidase I; Provisional; Region: PRK10861 643561003587 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 643561003588 Catalytic site [active] 643561003589 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 643561003590 ribonuclease III; Reviewed; Region: rnc; PRK00102 643561003591 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 643561003592 dimerization interface [polypeptide binding]; other site 643561003593 active site 643561003594 metal binding site [ion binding]; metal-binding site 643561003595 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 643561003596 dsRNA binding site [nucleotide binding]; other site 643561003597 GTPase Era; Reviewed; Region: era; PRK00089 643561003598 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 643561003599 G1 box; other site 643561003600 GTP/Mg2+ binding site [chemical binding]; other site 643561003601 Switch I region; other site 643561003602 G2 box; other site 643561003603 Switch II region; other site 643561003604 G3 box; other site 643561003605 G4 box; other site 643561003606 G5 box; other site 643561003607 KH domain; Region: KH_2; pfam07650 643561003608 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 643561003609 Recombination protein O N terminal; Region: RecO_N; pfam11967 643561003610 Recombination protein O C terminal; Region: RecO_C; pfam02565 643561003611 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 643561003612 active site 643561003613 hydrophilic channel; other site 643561003614 dimerization interface [polypeptide binding]; other site 643561003615 catalytic residues [active] 643561003616 active site lid [active] 643561003617 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 643561003618 beta-hexosaminidase; Provisional; Region: PRK05337 643561003619 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 643561003620 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 643561003621 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 643561003622 Mechanosensitive ion channel; Region: MS_channel; pfam00924 643561003623 Response regulator receiver domain; Region: Response_reg; pfam00072 643561003624 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561003625 active site 643561003626 phosphorylation site [posttranslational modification] 643561003627 intermolecular recognition site; other site 643561003628 dimerization interface [polypeptide binding]; other site 643561003629 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561003630 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561003631 metal binding site [ion binding]; metal-binding site 643561003632 active site 643561003633 I-site; other site 643561003634 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 643561003635 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 643561003636 dimer interface [polypeptide binding]; other site 643561003637 putative anticodon binding site; other site 643561003638 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 643561003639 motif 1; other site 643561003640 active site 643561003641 motif 2; other site 643561003642 motif 3; other site 643561003643 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 643561003644 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 643561003645 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 643561003646 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 643561003647 ubiquinone biosynthesis O-methyltransferase; Region: UbiG; TIGR01983 643561003648 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 643561003649 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 643561003650 Bacterial sugar transferase; Region: Bac_transf; pfam02397 643561003651 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 643561003652 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 643561003653 putative ADP-binding pocket [chemical binding]; other site 643561003654 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 643561003655 YGGT family; Region: YGGT; pfam02325 643561003656 YGGT family; Region: YGGT; pfam02325 643561003657 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 643561003658 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 643561003659 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 643561003660 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 643561003661 substrate binding site [chemical binding]; other site 643561003662 active site 643561003663 catalytic residues [active] 643561003664 heterodimer interface [polypeptide binding]; other site 643561003665 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 643561003666 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 643561003667 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561003668 catalytic residue [active] 643561003669 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 643561003670 active site 643561003671 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 643561003672 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 643561003673 dimerization interface 3.5A [polypeptide binding]; other site 643561003674 active site 643561003675 FimV N-terminal domain; Region: FimV_core; TIGR03505 643561003676 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 643561003677 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 643561003678 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 643561003679 short chain dehydrogenase; Provisional; Region: PRK07478 643561003680 classical (c) SDRs; Region: SDR_c; cd05233 643561003681 NAD(P) binding site [chemical binding]; other site 643561003682 active site 643561003683 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 643561003684 tartrate dehydrogenase; Region: TTC; TIGR02089 643561003685 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 643561003686 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 643561003687 substrate binding site [chemical binding]; other site 643561003688 Entericidin EcnA/B family; Region: Entericidin; pfam08085 643561003689 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 643561003690 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 643561003691 substrate binding site [chemical binding]; other site 643561003692 ligand binding site [chemical binding]; other site 643561003693 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561003694 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561003695 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 643561003696 putative dimerization interface [polypeptide binding]; other site 643561003697 chaperone protein DnaJ; Provisional; Region: PRK10767 643561003698 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 643561003699 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 643561003700 substrate binding site [polypeptide binding]; other site 643561003701 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 643561003702 Zn binding sites [ion binding]; other site 643561003703 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 643561003704 dimer interface [polypeptide binding]; other site 643561003705 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 643561003706 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 643561003707 nucleotide binding site [chemical binding]; other site 643561003708 GrpE; Region: GrpE; pfam01025 643561003709 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 643561003710 dimer interface [polypeptide binding]; other site 643561003711 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 643561003712 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 643561003713 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 643561003714 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 643561003715 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 643561003716 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 643561003717 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 643561003718 replicative DNA helicase; Region: DnaB; TIGR00665 643561003719 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 643561003720 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 643561003721 Walker A motif; other site 643561003722 ATP binding site [chemical binding]; other site 643561003723 Walker B motif; other site 643561003724 DNA binding loops [nucleotide binding] 643561003725 Src Homology 3 domain superfamily; Region: SH3; cl17036 643561003726 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 643561003727 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 643561003728 putative active site [active] 643561003729 PhoH-like protein; Region: PhoH; pfam02562 643561003730 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 643561003731 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 643561003732 catalytic triad [active] 643561003733 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 643561003734 aminotransferase AlaT; Validated; Region: PRK09265 643561003735 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 643561003736 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561003737 homodimer interface [polypeptide binding]; other site 643561003738 catalytic residue [active] 643561003739 homoserine dehydrogenase; Provisional; Region: PRK06349 643561003740 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 643561003741 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 643561003742 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 643561003743 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 643561003744 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 643561003745 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561003746 catalytic residue [active] 643561003747 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 643561003748 Walker A motif; other site 643561003749 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 643561003750 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 643561003751 dimer interface [polypeptide binding]; other site 643561003752 putative functional site; other site 643561003753 putative MPT binding site; other site 643561003754 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 643561003755 MoaE interaction surface [polypeptide binding]; other site 643561003756 MoeB interaction surface [polypeptide binding]; other site 643561003757 thiocarboxylated glycine; other site 643561003758 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 643561003759 dihydrodipicolinate synthase; Region: dapA; TIGR00674 643561003760 dimer interface [polypeptide binding]; other site 643561003761 active site 643561003762 catalytic residue [active] 643561003763 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 643561003764 MoaE homodimer interface [polypeptide binding]; other site 643561003765 MoaD interaction [polypeptide binding]; other site 643561003766 active site residues [active] 643561003767 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 643561003768 Clp amino terminal domain; Region: Clp_N; pfam02861 643561003769 Clp amino terminal domain; Region: Clp_N; pfam02861 643561003770 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 643561003771 Walker A motif; other site 643561003772 ATP binding site [chemical binding]; other site 643561003773 Walker B motif; other site 643561003774 arginine finger; other site 643561003775 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 643561003776 Walker A motif; other site 643561003777 ATP binding site [chemical binding]; other site 643561003778 Walker B motif; other site 643561003779 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 643561003780 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 643561003781 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 643561003782 NAD(P) binding site [chemical binding]; other site 643561003783 catalytic residues [active] 643561003784 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 643561003785 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 643561003786 Coenzyme A binding pocket [chemical binding]; other site 643561003787 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 643561003788 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 643561003789 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 643561003790 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 643561003791 FMN binding site [chemical binding]; other site 643561003792 active site 643561003793 catalytic residues [active] 643561003794 substrate binding site [chemical binding]; other site 643561003795 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 643561003796 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 643561003797 putative active site [active] 643561003798 catalytic site [active] 643561003799 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 643561003800 PLD-like domain; Region: PLDc_2; pfam13091 643561003801 putative active site [active] 643561003802 catalytic site [active] 643561003803 aspartate aminotransferase; Provisional; Region: PRK06108 643561003804 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 643561003805 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561003806 homodimer interface [polypeptide binding]; other site 643561003807 catalytic residue [active] 643561003808 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 643561003809 16S/18S rRNA binding site [nucleotide binding]; other site 643561003810 S13e-L30e interaction site [polypeptide binding]; other site 643561003811 25S rRNA binding site [nucleotide binding]; other site 643561003812 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 643561003813 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 643561003814 RNase E interface [polypeptide binding]; other site 643561003815 trimer interface [polypeptide binding]; other site 643561003816 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 643561003817 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 643561003818 RNase E interface [polypeptide binding]; other site 643561003819 trimer interface [polypeptide binding]; other site 643561003820 active site 643561003821 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 643561003822 putative nucleic acid binding region [nucleotide binding]; other site 643561003823 G-X-X-G motif; other site 643561003824 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 643561003825 RNA binding site [nucleotide binding]; other site 643561003826 domain interface; other site 643561003827 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 643561003828 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 643561003829 NAD(P) binding site [chemical binding]; other site 643561003830 triosephosphate isomerase; Provisional; Region: PRK14567 643561003831 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 643561003832 substrate binding site [chemical binding]; other site 643561003833 dimer interface [polypeptide binding]; other site 643561003834 catalytic triad [active] 643561003835 Preprotein translocase SecG subunit; Region: SecG; pfam03840 643561003836 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 643561003837 NADH dehydrogenase subunit B; Validated; Region: PRK06411 643561003838 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 643561003839 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 643561003840 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 643561003841 NADH dehydrogenase subunit D; Validated; Region: PRK06075 643561003842 NADH dehydrogenase subunit E; Validated; Region: PRK07539 643561003843 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 643561003844 putative dimer interface [polypeptide binding]; other site 643561003845 [2Fe-2S] cluster binding site [ion binding]; other site 643561003846 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 643561003847 SLBB domain; Region: SLBB; pfam10531 643561003848 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 643561003849 NADH dehydrogenase subunit G; Validated; Region: PRK09129 643561003850 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 643561003851 catalytic loop [active] 643561003852 iron binding site [ion binding]; other site 643561003853 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 643561003854 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 643561003855 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 643561003856 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 643561003857 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 643561003858 4Fe-4S binding domain; Region: Fer4; cl02805 643561003859 4Fe-4S binding domain; Region: Fer4; pfam00037 643561003860 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 643561003861 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 643561003862 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 643561003863 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 643561003864 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 643561003865 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 643561003866 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 643561003867 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 643561003868 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 643561003869 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 643561003870 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 643561003871 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 643561003872 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 643561003873 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 643561003874 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643561003875 Walker A/P-loop; other site 643561003876 ATP binding site [chemical binding]; other site 643561003877 Q-loop/lid; other site 643561003878 ABC transporter signature motif; other site 643561003879 Walker B; other site 643561003880 D-loop; other site 643561003881 H-loop/switch region; other site 643561003882 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 643561003883 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 643561003884 Walker A/P-loop; other site 643561003885 ATP binding site [chemical binding]; other site 643561003886 Q-loop/lid; other site 643561003887 ABC transporter signature motif; other site 643561003888 Walker B; other site 643561003889 D-loop; other site 643561003890 H-loop/switch region; other site 643561003891 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 643561003892 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 643561003893 Walker A/P-loop; other site 643561003894 ATP binding site [chemical binding]; other site 643561003895 Q-loop/lid; other site 643561003896 ABC transporter signature motif; other site 643561003897 Walker B; other site 643561003898 D-loop; other site 643561003899 H-loop/switch region; other site 643561003900 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 643561003901 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 643561003902 putative ligand binding site [chemical binding]; other site 643561003903 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 643561003904 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 643561003905 putative ligand binding site [chemical binding]; other site 643561003906 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 643561003907 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643561003908 TM-ABC transporter signature motif; other site 643561003909 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 643561003910 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 643561003911 TM-ABC transporter signature motif; other site 643561003912 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 643561003913 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 643561003914 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 643561003915 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 643561003916 catalytic residue [active] 643561003917 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 643561003918 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 643561003919 active site 643561003920 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 643561003921 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 643561003922 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 643561003923 putative dimer interface [polypeptide binding]; other site 643561003924 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 643561003925 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 643561003926 Walker A/P-loop; other site 643561003927 ATP binding site [chemical binding]; other site 643561003928 Q-loop/lid; other site 643561003929 ABC transporter signature motif; other site 643561003930 Walker B; other site 643561003931 D-loop; other site 643561003932 H-loop/switch region; other site 643561003933 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 643561003934 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 643561003935 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643561003936 NmrA-like family; Region: NmrA; pfam05368 643561003937 NAD(P) binding site [chemical binding]; other site 643561003938 active site 643561003939 Predicted transcriptional regulators [Transcription]; Region: COG1733 643561003940 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 643561003941 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 643561003942 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 643561003943 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 643561003944 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 643561003945 putative active site [active] 643561003946 catalytic site [active] 643561003947 putative metal binding site [ion binding]; other site 643561003948 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 643561003949 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 643561003950 ATP binding site [chemical binding]; other site 643561003951 Mg2+ binding site [ion binding]; other site 643561003952 G-X-G motif; other site 643561003953 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 643561003954 ATP binding site [chemical binding]; other site 643561003955 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 643561003956 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 643561003957 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 643561003958 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 643561003959 AMIN domain; Region: AMIN; pfam11741 643561003960 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 643561003961 active site 643561003962 metal binding site [ion binding]; metal-binding site 643561003963 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 643561003964 epoxyqueuosine reductase; Region: TIGR00276 643561003965 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 643561003966 Predicted permeases [General function prediction only]; Region: COG0679 643561003967 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561003968 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561003969 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 643561003970 dimerization interface [polypeptide binding]; other site 643561003971 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 643561003972 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 643561003973 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 643561003974 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 643561003975 hypothetical protein; Provisional; Region: PRK10621 643561003976 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561003977 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 643561003978 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 643561003979 active site 643561003980 DNA binding site [nucleotide binding] 643561003981 Int/Topo IB signature motif; other site 643561003982 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 643561003983 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 643561003984 EAL domain; Region: EAL; pfam00563 643561003985 EAL domain; Region: EAL; pfam00563 643561003986 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 643561003987 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 643561003988 dinuclear metal binding motif [ion binding]; other site 643561003989 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 643561003990 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 643561003991 trimer interface [polypeptide binding]; other site 643561003992 putative metal binding site [ion binding]; other site 643561003993 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 643561003994 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 643561003995 dimerization interface [polypeptide binding]; other site 643561003996 domain crossover interface; other site 643561003997 redox-dependent activation switch; other site 643561003998 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 643561003999 Septum formation initiator; Region: DivIC; cl17659 643561004000 enolase; Provisional; Region: eno; PRK00077 643561004001 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 643561004002 dimer interface [polypeptide binding]; other site 643561004003 metal binding site [ion binding]; metal-binding site 643561004004 substrate binding pocket [chemical binding]; other site 643561004005 Uncharacterized conserved protein [Function unknown]; Region: COG5470 643561004006 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 643561004007 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 643561004008 CTP synthetase; Validated; Region: pyrG; PRK05380 643561004009 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 643561004010 Catalytic site [active] 643561004011 active site 643561004012 UTP binding site [chemical binding]; other site 643561004013 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 643561004014 active site 643561004015 putative oxyanion hole; other site 643561004016 catalytic triad [active] 643561004017 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 643561004018 Flavoprotein; Region: Flavoprotein; pfam02441 643561004019 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 643561004020 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 643561004021 trimer interface [polypeptide binding]; other site 643561004022 active site 643561004023 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 643561004024 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 643561004025 Uncharacterized conserved protein [Function unknown]; Region: COG2850 643561004026 Cupin-like domain; Region: Cupin_8; pfam13621 643561004027 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 643561004028 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 643561004029 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 643561004030 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 643561004031 dihydrodipicolinate synthase; Region: dapA; TIGR00674 643561004032 dimer interface [polypeptide binding]; other site 643561004033 active site 643561004034 catalytic residue [active] 643561004035 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 643561004036 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 643561004037 S-adenosylmethionine binding site [chemical binding]; other site 643561004038 Major Facilitator Superfamily; Region: MFS_1; pfam07690 643561004039 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 643561004040 putative substrate translocation pore; other site 643561004041 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 643561004042 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 643561004043 ATP binding site [chemical binding]; other site 643561004044 Mg2+ binding site [ion binding]; other site 643561004045 G-X-G motif; other site 643561004046 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 643561004047 anchoring element; other site 643561004048 dimer interface [polypeptide binding]; other site 643561004049 ATP binding site [chemical binding]; other site 643561004050 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 643561004051 active site 643561004052 metal binding site [ion binding]; metal-binding site 643561004053 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 643561004054 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 643561004055 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 643561004056 N-acetyl-D-glucosamine binding site [chemical binding]; other site 643561004057 catalytic residue [active] 643561004058 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 643561004059 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 643561004060 CAP-like domain; other site 643561004061 active site 643561004062 primary dimer interface [polypeptide binding]; other site 643561004063 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 643561004064 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561004065 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561004066 dimer interface [polypeptide binding]; other site 643561004067 putative CheW interface [polypeptide binding]; other site 643561004068 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 643561004069 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561004070 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561004071 dimer interface [polypeptide binding]; other site 643561004072 putative CheW interface [polypeptide binding]; other site 643561004073 pyridoxamine kinase; Validated; Region: PRK05756 643561004074 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 643561004075 pyridoxal binding site [chemical binding]; other site 643561004076 dimer interface [polypeptide binding]; other site 643561004077 ATP binding site [chemical binding]; other site 643561004078 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 643561004079 homotrimer interaction site [polypeptide binding]; other site 643561004080 putative active site [active] 643561004081 Uncharacterized conserved protein [Function unknown]; Region: COG3791 643561004082 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 643561004083 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 643561004084 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 643561004085 Competence protein; Region: Competence; pfam03772 643561004086 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 643561004087 Uncharacterized conserved protein [Function unknown]; Region: COG2308 643561004088 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 643561004089 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 643561004090 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. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 643561004091 nudix motif; other site 643561004092 S-adenosyl-L-homocysteine hydrolase, NAD binding domain; Region: AdoHcyase_NAD; smart00997 643561004093 NAD binding site [chemical binding]; other site 643561004094 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 643561004095 Methyltransferase domain; Region: Methyltransf_23; pfam13489 643561004096 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 643561004097 S-adenosylmethionine binding site [chemical binding]; other site 643561004098 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 643561004099 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 643561004100 dimer interface [polypeptide binding]; other site 643561004101 active site 643561004102 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 643561004103 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 643561004104 dimer interface [polypeptide binding]; other site 643561004105 active site 643561004106 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 643561004107 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 643561004108 NAD(P) binding site [chemical binding]; other site 643561004109 homotetramer interface [polypeptide binding]; other site 643561004110 homodimer interface [polypeptide binding]; other site 643561004111 active site 643561004112 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 643561004113 putative active site 1 [active] 643561004114 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 643561004115 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 643561004116 dimer interface [polypeptide binding]; other site 643561004117 active site 643561004118 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 643561004119 Predicted exporter [General function prediction only]; Region: COG4258 643561004120 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 643561004121 active site 643561004122 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 643561004123 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 643561004124 Ligand binding site; other site 643561004125 Putative Catalytic site; other site 643561004126 DXD motif; other site 643561004127 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 643561004128 putative acyl-acceptor binding pocket; other site 643561004129 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 643561004130 active site 2 [active] 643561004131 active site 1 [active] 643561004132 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 643561004133 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 643561004134 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 643561004135 acyl-activating enzyme (AAE) consensus motif; other site 643561004136 acyl-activating enzyme (AAE) consensus motif; other site 643561004137 AMP binding site [chemical binding]; other site 643561004138 active site 643561004139 CoA binding site [chemical binding]; other site 643561004140 Predicted membrane protein [Function unknown]; Region: COG4648 643561004141 acyl carrier protein; Provisional; Region: PRK05350 643561004142 Phosphopantetheine attachment site; Region: PP-binding; cl09936 643561004143 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 643561004144 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 643561004145 putative acyl-acceptor binding pocket; other site 643561004146 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 643561004147 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 643561004148 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561004149 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561004150 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 643561004151 putative effector binding pocket; other site 643561004152 putative dimerization interface [polypeptide binding]; other site 643561004153 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 643561004154 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 643561004155 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 643561004156 HlyD family secretion protein; Region: HlyD_3; pfam13437 643561004157 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 643561004158 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 643561004159 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 643561004160 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 643561004161 tetramerization interface [polypeptide binding]; other site 643561004162 NAD(P) binding site [chemical binding]; other site 643561004163 catalytic residues [active] 643561004164 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 643561004165 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 643561004166 N-terminal plug; other site 643561004167 ligand-binding site [chemical binding]; other site 643561004168 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 643561004169 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 643561004170 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 643561004171 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 643561004172 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 643561004173 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 643561004174 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 643561004175 N-terminal plug; other site 643561004176 ligand-binding site [chemical binding]; other site 643561004177 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 643561004178 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 643561004179 heme binding site [chemical binding]; other site 643561004180 ferroxidase pore; other site 643561004181 ferroxidase diiron center [ion binding]; other site 643561004182 peroxiredoxin; Region: AhpC; TIGR03137 643561004183 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 643561004184 dimer interface [polypeptide binding]; other site 643561004185 decamer (pentamer of dimers) interface [polypeptide binding]; other site 643561004186 catalytic triad [active] 643561004187 peroxidatic and resolving cysteines [active] 643561004188 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 643561004189 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 643561004190 catalytic residue [active] 643561004191 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 643561004192 catalytic residues [active] 643561004193 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 643561004194 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 643561004195 Transposase domain (DUF772); Region: DUF772; pfam05598 643561004196 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 643561004197 DDE superfamily endonuclease; Region: DDE_4; cl17710 643561004198 Restriction endonuclease; Region: Mrr_cat; pfam04471 643561004199 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 643561004200 PEP synthetase regulatory protein; Provisional; Region: PRK05339 643561004201 phosphoenolpyruvate synthase; Validated; Region: PRK06464 643561004202 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 643561004203 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 643561004204 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 643561004205 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 643561004206 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 643561004207 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 643561004208 TIGR03118 family protein; Region: PEPCTERM_chp_1 643561004209 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 643561004210 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 643561004211 dimerization interface [polypeptide binding]; other site 643561004212 putative DNA binding site [nucleotide binding]; other site 643561004213 Predicted transcriptional regulators [Transcription]; Region: COG1733 643561004214 putative Zn2+ binding site [ion binding]; other site 643561004215 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561004216 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561004217 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 643561004218 dimerization interface [polypeptide binding]; other site 643561004219 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 643561004220 active site 643561004221 catalytic residues [active] 643561004222 metal binding site [ion binding]; metal-binding site 643561004223 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 643561004224 CoA-transferase family III; Region: CoA_transf_3; pfam02515 643561004225 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561004226 aromatic amino acid exporter; Provisional; Region: PRK11689 643561004227 VirK protein; Region: VirK; pfam06903 643561004228 cell density-dependent motility repressor; Provisional; Region: PRK10082 643561004229 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561004230 LysR substrate binding domain; Region: LysR_substrate; pfam03466 643561004231 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 643561004232 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 643561004233 inhibitor site; inhibition site 643561004234 active site 643561004235 dimer interface [polypeptide binding]; other site 643561004236 catalytic residue [active] 643561004237 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561004238 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 643561004239 classical (c) SDRs; Region: SDR_c; cd05233 643561004240 NAD(P) binding site [chemical binding]; other site 643561004241 active site 643561004242 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 643561004243 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 643561004244 putative active site pocket [active] 643561004245 metal binding site [ion binding]; metal-binding site 643561004246 PIN domain; Region: PIN; pfam01850 643561004247 Domain of unknown function (DUF955); Region: DUF955; cl01076 643561004248 Abortive infection C-terminus; Region: Abi_C; pfam14355 643561004249 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 643561004250 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 643561004251 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 643561004252 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 643561004253 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 643561004254 dimerization interface [polypeptide binding]; other site 643561004255 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561004256 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561004257 dimer interface [polypeptide binding]; other site 643561004258 putative CheW interface [polypeptide binding]; other site 643561004259 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 643561004260 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 643561004261 Trp docking motif [polypeptide binding]; other site 643561004262 putative active site [active] 643561004263 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 643561004264 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 643561004265 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 643561004266 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 643561004267 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 643561004268 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 643561004269 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 643561004270 DNA binding residues [nucleotide binding] 643561004271 DNA primase, catalytic core; Region: dnaG; TIGR01391 643561004272 CHC2 zinc finger; Region: zf-CHC2; pfam01807 643561004273 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 643561004274 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 643561004275 active site 643561004276 metal binding site [ion binding]; metal-binding site 643561004277 interdomain interaction site; other site 643561004278 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 643561004279 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 643561004280 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 643561004281 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 643561004282 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 643561004283 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 643561004284 PhoD-like phosphatase; Region: PhoD; pfam09423 643561004285 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 643561004286 putative active site [active] 643561004287 putative metal binding site [ion binding]; other site 643561004288 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 643561004289 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561004290 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561004291 metal binding site [ion binding]; metal-binding site 643561004292 active site 643561004293 I-site; other site 643561004294 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 643561004295 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 643561004296 NAD(P) binding site [chemical binding]; other site 643561004297 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 643561004298 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 643561004299 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 643561004300 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 643561004301 Peptidase family M23; Region: Peptidase_M23; pfam01551 643561004302 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 643561004303 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 643561004304 RNA binding surface [nucleotide binding]; other site 643561004305 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 643561004306 active site 643561004307 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 643561004308 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 643561004309 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 643561004310 RNA binding surface [nucleotide binding]; other site 643561004311 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 643561004312 probable active site [active] 643561004313 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 643561004314 active site 643561004315 multimer interface [polypeptide binding]; other site 643561004316 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 643561004317 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 643561004318 FeS/SAM binding site; other site 643561004319 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 643561004320 binding surface 643561004321 TPR repeat; Region: TPR_11; pfam13414 643561004322 TPR motif; other site 643561004323 Tetratricopeptide repeat; Region: TPR_12; pfam13424 643561004324 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 643561004325 binding surface 643561004326 TPR motif; other site 643561004327 Helix-turn-helix domain; Region: HTH_25; pfam13413 643561004328 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 643561004329 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 643561004330 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 643561004331 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 643561004332 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 643561004333 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 643561004334 dimer interface [polypeptide binding]; other site 643561004335 motif 1; other site 643561004336 active site 643561004337 motif 2; other site 643561004338 motif 3; other site 643561004339 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 643561004340 anticodon binding site; other site 643561004341 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 643561004342 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 643561004343 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 643561004344 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 643561004345 Trp docking motif [polypeptide binding]; other site 643561004346 active site 643561004347 GTP-binding protein Der; Reviewed; Region: PRK00093 643561004348 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 643561004349 G1 box; other site 643561004350 GTP/Mg2+ binding site [chemical binding]; other site 643561004351 Switch I region; other site 643561004352 G2 box; other site 643561004353 Switch II region; other site 643561004354 G3 box; other site 643561004355 G4 box; other site 643561004356 G5 box; other site 643561004357 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 643561004358 G1 box; other site 643561004359 GTP/Mg2+ binding site [chemical binding]; other site 643561004360 Switch I region; other site 643561004361 G2 box; other site 643561004362 G3 box; other site 643561004363 Switch II region; other site 643561004364 G4 box; other site 643561004365 G5 box; other site 643561004366 bacterial Hfq-like; Region: Hfq; cd01716 643561004367 hexamer interface [polypeptide binding]; other site 643561004368 Sm1 motif; other site 643561004369 RNA binding site [nucleotide binding]; other site 643561004370 Sm2 motif; other site 643561004371 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 643561004372 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 643561004373 HflX GTPase family; Region: HflX; cd01878 643561004374 G1 box; other site 643561004375 GTP/Mg2+ binding site [chemical binding]; other site 643561004376 Switch I region; other site 643561004377 G2 box; other site 643561004378 G3 box; other site 643561004379 Switch II region; other site 643561004380 G4 box; other site 643561004381 G5 box; other site 643561004382 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 643561004383 HflK protein; Region: hflK; TIGR01933 643561004384 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 643561004385 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 643561004386 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 643561004387 dimer interface [polypeptide binding]; other site 643561004388 motif 1; other site 643561004389 active site 643561004390 motif 2; other site 643561004391 motif 3; other site 643561004392 adenylosuccinate synthetase; Provisional; Region: PRK01117 643561004393 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 643561004394 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 643561004395 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 643561004396 active site 643561004397 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 643561004398 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 643561004399 active site 643561004400 uracil binding [chemical binding]; other site 643561004401 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 643561004402 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 643561004403 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 643561004404 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 643561004405 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 643561004406 NodB motif; other site 643561004407 active site 643561004408 catalytic site [active] 643561004409 metal binding site [ion binding]; metal-binding site 643561004410 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 643561004411 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 643561004412 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 643561004413 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 643561004414 putative MPT binding site; other site 643561004415 glutamine synthetase; Provisional; Region: glnA; PRK09469 643561004416 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 643561004417 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 643561004418 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 643561004419 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 643561004420 dimer interface [polypeptide binding]; other site 643561004421 phosphorylation site [posttranslational modification] 643561004422 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 643561004423 ATP binding site [chemical binding]; other site 643561004424 Mg2+ binding site [ion binding]; other site 643561004425 G-X-G motif; other site 643561004426 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 643561004427 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561004428 active site 643561004429 phosphorylation site [posttranslational modification] 643561004430 intermolecular recognition site; other site 643561004431 dimerization interface [polypeptide binding]; other site 643561004432 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 643561004433 Walker A motif; other site 643561004434 ATP binding site [chemical binding]; other site 643561004435 Walker B motif; other site 643561004436 arginine finger; other site 643561004437 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 643561004438 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 643561004439 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 643561004440 putative catalytic site [active] 643561004441 putative phosphate binding site [ion binding]; other site 643561004442 active site 643561004443 metal binding site A [ion binding]; metal-binding site 643561004444 DNA binding site [nucleotide binding] 643561004445 putative AP binding site [nucleotide binding]; other site 643561004446 putative metal binding site B [ion binding]; other site 643561004447 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 643561004448 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 643561004449 folate binding site [chemical binding]; other site 643561004450 NADP+ binding site [chemical binding]; other site 643561004451 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 643561004452 thymidylate synthase; Reviewed; Region: thyA; PRK01827 643561004453 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 643561004454 dimerization interface [polypeptide binding]; other site 643561004455 active site 643561004456 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 643561004457 FAD binding domain; Region: FAD_binding_4; pfam01565 643561004458 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 643561004459 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 643561004460 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 643561004461 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 643561004462 catalytic residues [active] 643561004463 substrate binding pocket [chemical binding]; other site 643561004464 substrate-Mg2+ binding site; other site 643561004465 aspartate-rich region 1; other site 643561004466 aspartate-rich region 2; other site 643561004467 Found in ATP-dependent protease La (LON); Region: LON; smart00464 643561004468 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 643561004469 Found in ATP-dependent protease La (LON); Region: LON; smart00464 643561004470 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 643561004471 Walker A motif; other site 643561004472 ATP binding site [chemical binding]; other site 643561004473 Walker B motif; other site 643561004474 arginine finger; other site 643561004475 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 643561004476 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 643561004477 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 643561004478 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 643561004479 Walker A motif; other site 643561004480 ATP binding site [chemical binding]; other site 643561004481 Walker B motif; other site 643561004482 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 643561004483 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 643561004484 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 643561004485 oligomer interface [polypeptide binding]; other site 643561004486 active site residues [active] 643561004487 trigger factor; Provisional; Region: tig; PRK01490 643561004488 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 643561004489 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 643561004490 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 643561004491 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 643561004492 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 643561004493 HlyD family secretion protein; Region: HlyD_3; pfam13437 643561004494 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 643561004495 active site lid residues [active] 643561004496 substrate binding pocket [chemical binding]; other site 643561004497 catalytic residues [active] 643561004498 substrate-Mg2+ binding site; other site 643561004499 aspartate-rich region 1; other site 643561004500 aspartate-rich region 2; other site 643561004501 Protein of unknown function (DUF796); Region: DUF796; pfam05638 643561004502 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 643561004503 Catalytic domain of Protein Kinases; Region: PKc; cd00180 643561004504 active site 643561004505 ATP binding site [chemical binding]; other site 643561004506 substrate binding site [chemical binding]; other site 643561004507 activation loop (A-loop); other site 643561004508 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 643561004509 TPR motif; other site 643561004510 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 643561004511 phosphopeptide binding site; other site 643561004512 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 643561004513 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 643561004514 active site 643561004515 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 643561004516 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 643561004517 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 643561004518 hypothetical protein; Provisional; Region: PRK07033 643561004519 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 643561004520 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 643561004521 ligand binding site [chemical binding]; other site 643561004522 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 643561004523 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 643561004524 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 643561004525 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; pfam09867 643561004526 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 643561004527 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 643561004528 Protein of unknown function (DUF770); Region: DUF770; pfam05591 643561004529 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 643561004530 Protein of unknown function (DUF877); Region: DUF877; pfam05943 643561004531 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 643561004532 ImpE protein; Region: ImpE; pfam07024 643561004533 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 643561004534 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 643561004535 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 643561004536 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 643561004537 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 643561004538 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 643561004539 Walker A motif; other site 643561004540 ATP binding site [chemical binding]; other site 643561004541 Walker B motif; other site 643561004542 arginine finger; other site 643561004543 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 643561004544 Walker A motif; other site 643561004545 ATP binding site [chemical binding]; other site 643561004546 Walker B motif; other site 643561004547 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 643561004548 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 643561004549 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 643561004550 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 643561004551 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 643561004552 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 643561004553 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 643561004554 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 643561004555 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 643561004556 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 643561004557 glutamate racemase; Provisional; Region: PRK00865 643561004558 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 643561004559 Fumarase C-terminus; Region: Fumerase_C; pfam05683 643561004560 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 643561004561 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 643561004562 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 643561004563 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561004564 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561004565 metal binding site [ion binding]; metal-binding site 643561004566 active site 643561004567 I-site; other site 643561004568 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 643561004569 fumarate hydratase; Reviewed; Region: fumC; PRK00485 643561004570 Class II fumarases; Region: Fumarase_classII; cd01362 643561004571 active site 643561004572 tetramer interface [polypeptide binding]; other site 643561004573 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 643561004574 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 643561004575 active site 643561004576 DNA binding site [nucleotide binding] 643561004577 Int/Topo IB signature motif; other site 643561004578 catalytic residues [active] 643561004579 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 643561004580 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561004581 active site 643561004582 phosphorylation site [posttranslational modification] 643561004583 intermolecular recognition site; other site 643561004584 dimerization interface [polypeptide binding]; other site 643561004585 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 643561004586 DNA binding site [nucleotide binding] 643561004587 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 643561004588 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 643561004589 dimerization interface [polypeptide binding]; other site 643561004590 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 643561004591 dimer interface [polypeptide binding]; other site 643561004592 phosphorylation site [posttranslational modification] 643561004593 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 643561004594 ATP binding site [chemical binding]; other site 643561004595 Mg2+ binding site [ion binding]; other site 643561004596 G-X-G motif; other site 643561004597 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 643561004598 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 643561004599 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 643561004600 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561004601 dimer interface [polypeptide binding]; other site 643561004602 conserved gate region; other site 643561004603 putative PBP binding loops; other site 643561004604 ABC-ATPase subunit interface; other site 643561004605 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 643561004606 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 643561004607 Walker A/P-loop; other site 643561004608 ATP binding site [chemical binding]; other site 643561004609 Q-loop/lid; other site 643561004610 ABC transporter signature motif; other site 643561004611 Walker B; other site 643561004612 D-loop; other site 643561004613 H-loop/switch region; other site 643561004614 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 643561004615 hypothetical protein; Provisional; Region: PRK05208 643561004616 acetyl-CoA synthetase; Provisional; Region: PRK00174 643561004617 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 643561004618 active site 643561004619 CoA binding site [chemical binding]; other site 643561004620 acyl-activating enzyme (AAE) consensus motif; other site 643561004621 AMP binding site [chemical binding]; other site 643561004622 acetate binding site [chemical binding]; other site 643561004623 Cytochrome c; Region: Cytochrom_C; cl11414 643561004624 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 643561004625 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 643561004626 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 643561004627 heme binding site [chemical binding]; other site 643561004628 ferroxidase pore; other site 643561004629 ferroxidase diiron center [ion binding]; other site 643561004630 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 643561004631 Transcriptional regulators [Transcription]; Region: GntR; COG1802 643561004632 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643561004633 DNA-binding site [nucleotide binding]; DNA binding site 643561004634 FCD domain; Region: FCD; pfam07729 643561004635 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 643561004636 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561004637 enoyl-CoA hydratase; Provisional; Region: PRK06144 643561004638 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 643561004639 substrate binding site [chemical binding]; other site 643561004640 oxyanion hole (OAH) forming residues; other site 643561004641 trimer interface [polypeptide binding]; other site 643561004642 malonyl-CoA synthase; Validated; Region: PRK07514 643561004643 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 643561004644 acyl-activating enzyme (AAE) consensus motif; other site 643561004645 active site 643561004646 AMP binding site [chemical binding]; other site 643561004647 CoA binding site [chemical binding]; other site 643561004648 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 643561004649 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561004650 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 643561004651 dimerization interface [polypeptide binding]; other site 643561004652 substrate binding pocket [chemical binding]; other site 643561004653 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 643561004654 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 643561004655 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 643561004656 active site 643561004657 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 643561004658 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 643561004659 ligand binding site [chemical binding]; other site 643561004660 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643561004661 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 643561004662 TM-ABC transporter signature motif; other site 643561004663 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 643561004664 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 643561004665 TM-ABC transporter signature motif; other site 643561004666 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 643561004667 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 643561004668 Walker A/P-loop; other site 643561004669 ATP binding site [chemical binding]; other site 643561004670 Q-loop/lid; other site 643561004671 ABC transporter signature motif; other site 643561004672 Walker B; other site 643561004673 D-loop; other site 643561004674 H-loop/switch region; other site 643561004675 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 643561004676 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 643561004677 Walker A/P-loop; other site 643561004678 ATP binding site [chemical binding]; other site 643561004679 Q-loop/lid; other site 643561004680 ABC transporter signature motif; other site 643561004681 Walker B; other site 643561004682 D-loop; other site 643561004683 H-loop/switch region; other site 643561004684 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 643561004685 Ligand Binding Site [chemical binding]; other site 643561004686 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 643561004687 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 643561004688 metal-binding site [ion binding] 643561004689 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 643561004690 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 643561004691 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 643561004692 Low-spin heme binding site [chemical binding]; other site 643561004693 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 643561004694 Putative water exit pathway; other site 643561004695 Binuclear center (active site) [active] 643561004696 Putative proton exit pathway; other site 643561004697 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 643561004698 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 643561004699 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 643561004700 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 643561004701 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 643561004702 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 643561004703 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 643561004704 4Fe-4S binding domain; Region: Fer4_5; pfam12801 643561004705 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 643561004706 FixH; Region: FixH; pfam05751 643561004707 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 643561004708 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 643561004709 ligand binding site [chemical binding]; other site 643561004710 flexible hinge region; other site 643561004711 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 643561004712 putative switch regulator; other site 643561004713 non-specific DNA interactions [nucleotide binding]; other site 643561004714 DNA binding site [nucleotide binding] 643561004715 sequence specific DNA binding site [nucleotide binding]; other site 643561004716 putative cAMP binding site [chemical binding]; other site 643561004717 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 643561004718 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 643561004719 FeS/SAM binding site; other site 643561004720 HemN C-terminal domain; Region: HemN_C; pfam06969 643561004721 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 643561004722 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 643561004723 HD domain; Region: HD_5; pfam13487 643561004724 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 643561004725 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 643561004726 putative active site [active] 643561004727 heme pocket [chemical binding]; other site 643561004728 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561004729 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561004730 metal binding site [ion binding]; metal-binding site 643561004731 active site 643561004732 I-site; other site 643561004733 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 643561004734 Cell division protein ZapA; Region: ZapA; pfam05164 643561004735 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 643561004736 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 643561004737 N-terminal plug; other site 643561004738 ligand-binding site [chemical binding]; other site 643561004739 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 643561004740 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 643561004741 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 643561004742 catalytic triad [active] 643561004743 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 643561004744 homotrimer interface [polypeptide binding]; other site 643561004745 Walker A motif; other site 643561004746 GTP binding site [chemical binding]; other site 643561004747 Walker B motif; other site 643561004748 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 643561004749 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 643561004750 intersubunit interface [polypeptide binding]; other site 643561004751 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 643561004752 dimer interface [polypeptide binding]; other site 643561004753 putative PBP binding regions; other site 643561004754 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 643561004755 ABC-ATPase subunit interface; other site 643561004756 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 643561004757 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643561004758 Walker A/P-loop; other site 643561004759 ATP binding site [chemical binding]; other site 643561004760 Q-loop/lid; other site 643561004761 ABC transporter signature motif; other site 643561004762 Walker B; other site 643561004763 D-loop; other site 643561004764 H-loop/switch region; other site 643561004765 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 643561004766 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 643561004767 homodimer interface [polypeptide binding]; other site 643561004768 Walker A motif; other site 643561004769 ATP binding site [chemical binding]; other site 643561004770 hydroxycobalamin binding site [chemical binding]; other site 643561004771 Walker B motif; other site 643561004772 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 643561004773 FMN binding site [chemical binding]; other site 643561004774 dimer interface [polypeptide binding]; other site 643561004775 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 643561004776 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 643561004777 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 643561004778 catalytic residue [active] 643561004779 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 643561004780 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 643561004781 classical (c) SDRs; Region: SDR_c; cd05233 643561004782 NAD(P) binding site [chemical binding]; other site 643561004783 active site 643561004784 cobyric acid synthase; Provisional; Region: PRK00784 643561004785 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 643561004786 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 643561004787 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 643561004788 catalytic triad [active] 643561004789 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 643561004790 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 643561004791 putative dimer interface [polypeptide binding]; other site 643561004792 active site pocket [active] 643561004793 putative cataytic base [active] 643561004794 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 643561004795 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643561004796 Walker A/P-loop; other site 643561004797 ATP binding site [chemical binding]; other site 643561004798 Q-loop/lid; other site 643561004799 ABC transporter signature motif; other site 643561004800 Walker B; other site 643561004801 D-loop; other site 643561004802 H-loop/switch region; other site 643561004803 TOBE domain; Region: TOBE_2; pfam08402 643561004804 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 643561004805 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 643561004806 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561004807 dimer interface [polypeptide binding]; other site 643561004808 conserved gate region; other site 643561004809 putative PBP binding loops; other site 643561004810 ABC-ATPase subunit interface; other site 643561004811 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 643561004812 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561004813 dimer interface [polypeptide binding]; other site 643561004814 conserved gate region; other site 643561004815 putative PBP binding loops; other site 643561004816 ABC-ATPase subunit interface; other site 643561004817 Transcriptional regulators [Transcription]; Region: GntR; COG1802 643561004818 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643561004819 DNA-binding site [nucleotide binding]; DNA binding site 643561004820 FCD domain; Region: FCD; pfam07729 643561004821 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 643561004822 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 643561004823 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 643561004824 putative substrate translocation pore; other site 643561004825 tellurite resistance protein terB; Region: terB; cd07176 643561004826 putative metal binding site [ion binding]; other site 643561004827 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 643561004828 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 643561004829 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 643561004830 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 643561004831 minor groove reading motif; other site 643561004832 helix-hairpin-helix signature motif; other site 643561004833 substrate binding pocket [chemical binding]; other site 643561004834 active site 643561004835 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 643561004836 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 643561004837 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 643561004838 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561004839 homodimer interface [polypeptide binding]; other site 643561004840 catalytic residue [active] 643561004841 SlyX; Region: SlyX; pfam04102 643561004842 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 643561004843 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 643561004844 active site 643561004845 catalytic tetrad [active] 643561004846 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 643561004847 DEAD-like helicases superfamily; Region: DEXDc; smart00487 643561004848 ATP binding site [chemical binding]; other site 643561004849 Mg++ binding site [ion binding]; other site 643561004850 motif III; other site 643561004851 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 643561004852 nucleotide binding region [chemical binding]; other site 643561004853 ATP-binding site [chemical binding]; other site 643561004854 translation initiation factor Sui1; Validated; Region: PRK06824 643561004855 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 643561004856 putative rRNA binding site [nucleotide binding]; other site 643561004857 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 643561004858 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 643561004859 heme-binding site [chemical binding]; other site 643561004860 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 643561004861 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 643561004862 Hemerythrin-like domain; Region: Hr-like; cd12108 643561004863 Fe binding site [ion binding]; other site 643561004864 Transcriptional regulator; Region: Rrf2; cl17282 643561004865 Rrf2 family protein; Region: rrf2_super; TIGR00738 643561004866 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 643561004867 Strictosidine synthase; Region: Str_synth; pfam03088 643561004868 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 643561004869 active site 643561004870 Cupin domain; Region: Cupin_2; cl17218 643561004871 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 643561004872 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 643561004873 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 643561004874 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 643561004875 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561004876 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 643561004877 dimerization interface [polypeptide binding]; other site 643561004878 Lysine efflux permease [General function prediction only]; Region: COG1279 643561004879 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 643561004880 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 643561004881 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 643561004882 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 643561004883 motif II; other site 643561004884 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 643561004885 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 643561004886 DNA binding residues [nucleotide binding] 643561004887 dimerization interface [polypeptide binding]; other site 643561004888 Tannase and feruloyl esterase; Region: Tannase; pfam07519 643561004889 Predicted membrane protein [Function unknown]; Region: COG3235 643561004890 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 643561004891 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 643561004892 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 643561004893 ATP binding site [chemical binding]; other site 643561004894 putative Mg++ binding site [ion binding]; other site 643561004895 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 643561004896 nucleotide binding region [chemical binding]; other site 643561004897 ATP-binding site [chemical binding]; other site 643561004898 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 643561004899 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 643561004900 substrate binding site; other site 643561004901 dimer interface; other site 643561004902 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 643561004903 homotrimer interaction site [polypeptide binding]; other site 643561004904 zinc binding site [ion binding]; other site 643561004905 CDP-binding sites; other site 643561004906 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 643561004907 dimerization interface [polypeptide binding]; other site 643561004908 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 643561004909 dimer interface [polypeptide binding]; other site 643561004910 phosphorylation site [posttranslational modification] 643561004911 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 643561004912 ATP binding site [chemical binding]; other site 643561004913 Mg2+ binding site [ion binding]; other site 643561004914 G-X-G motif; other site 643561004915 osmolarity response regulator; Provisional; Region: ompR; PRK09468 643561004916 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561004917 active site 643561004918 phosphorylation site [posttranslational modification] 643561004919 intermolecular recognition site; other site 643561004920 dimerization interface [polypeptide binding]; other site 643561004921 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 643561004922 DNA binding site [nucleotide binding] 643561004923 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 643561004924 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 643561004925 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 643561004926 NAD binding site [chemical binding]; other site 643561004927 homotetramer interface [polypeptide binding]; other site 643561004928 homodimer interface [polypeptide binding]; other site 643561004929 substrate binding site [chemical binding]; other site 643561004930 active site 643561004931 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 643561004932 HD domain; Region: HD_4; pfam13328 643561004933 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 643561004934 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 643561004935 synthetase active site [active] 643561004936 NTP binding site [chemical binding]; other site 643561004937 metal binding site [ion binding]; metal-binding site 643561004938 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 643561004939 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 643561004940 Toxin YafO, type II toxin-antitoxin system; Region: YafO_toxin; cl08066 643561004941 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 643561004942 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 643561004943 dimerization interface [polypeptide binding]; other site 643561004944 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561004945 dimer interface [polypeptide binding]; other site 643561004946 putative CheW interface [polypeptide binding]; other site 643561004947 IPTL-CTERM protein sorting domain; Region: IPTL_CTERM; TIGR04174 643561004948 OsmC-like protein; Region: OsmC; cl00767 643561004949 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 643561004950 intracellular protease, PfpI family; Region: PfpI; TIGR01382 643561004951 proposed catalytic triad [active] 643561004952 conserved cys residue [active] 643561004953 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 643561004954 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 643561004955 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 643561004956 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 643561004957 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 643561004958 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 643561004959 substrate binding site [chemical binding]; other site 643561004960 ATP binding site [chemical binding]; other site 643561004961 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 643561004962 galactarate dehydratase; Region: galactar-dH20; TIGR03248 643561004963 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 643561004964 Domain of unknown function (DUF718); Region: DUF718; pfam05336 643561004965 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 643561004966 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 643561004967 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 643561004968 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 643561004969 putative NAD(P) binding site [chemical binding]; other site 643561004970 catalytic Zn binding site [ion binding]; other site 643561004971 structural Zn binding site [ion binding]; other site 643561004972 Amidohydrolase; Region: Amidohydro_2; pfam04909 643561004973 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 643561004974 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 643561004975 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 643561004976 active site 643561004977 catalytic tetrad [active] 643561004978 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 643561004979 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 643561004980 putative ligand binding site [chemical binding]; other site 643561004981 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643561004982 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 643561004983 TM-ABC transporter signature motif; other site 643561004984 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 643561004985 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 643561004986 Walker A/P-loop; other site 643561004987 ATP binding site [chemical binding]; other site 643561004988 Q-loop/lid; other site 643561004989 ABC transporter signature motif; other site 643561004990 Walker B; other site 643561004991 D-loop; other site 643561004992 H-loop/switch region; other site 643561004993 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 643561004994 Transcriptional regulators [Transcription]; Region: FadR; COG2186 643561004995 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643561004996 DNA-binding site [nucleotide binding]; DNA binding site 643561004997 FCD domain; Region: FCD; pfam07729 643561004998 2-keto-3-deoxygluconate permease; Region: KdgT; cl14653 643561004999 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 643561005000 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 643561005001 NAD binding site [chemical binding]; other site 643561005002 homotetramer interface [polypeptide binding]; other site 643561005003 homodimer interface [polypeptide binding]; other site 643561005004 active site 643561005005 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 643561005006 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 643561005007 Transcriptional regulator [Transcription]; Region: IclR; COG1414 643561005008 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 643561005009 Bacterial transcriptional regulator; Region: IclR; pfam01614 643561005010 Uncharacterized conserved protein (DUF2267); Region: DUF2267; pfam10025 643561005011 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 643561005012 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 643561005013 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 643561005014 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 643561005015 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 643561005016 FeS/SAM binding site; other site 643561005017 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 643561005018 active site 643561005019 NTP binding site [chemical binding]; other site 643561005020 metal binding triad [ion binding]; metal-binding site 643561005021 manganese transport protein MntH; Reviewed; Region: PRK00701 643561005022 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 643561005023 citrate-proton symporter; Provisional; Region: PRK15075 643561005024 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 643561005025 putative substrate translocation pore; other site 643561005026 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 643561005027 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 643561005028 non-specific DNA binding site [nucleotide binding]; other site 643561005029 salt bridge; other site 643561005030 sequence-specific DNA binding site [nucleotide binding]; other site 643561005031 Cupin domain; Region: Cupin_2; cl17218 643561005032 elongation factor P; Validated; Region: PRK00529 643561005033 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 643561005034 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 643561005035 RNA binding site [nucleotide binding]; other site 643561005036 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 643561005037 RNA binding site [nucleotide binding]; other site 643561005038 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 643561005039 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 643561005040 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561005041 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 643561005042 putative dimerization interface [polypeptide binding]; other site 643561005043 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 643561005044 CoA-transferase family III; Region: CoA_transf_3; pfam02515 643561005045 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 643561005046 active site 643561005047 catalytic residues [active] 643561005048 metal binding site [ion binding]; metal-binding site 643561005049 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561005050 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 643561005051 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 643561005052 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 643561005053 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 643561005054 putative active site [active] 643561005055 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 643561005056 catalytic nucleophile [active] 643561005057 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 643561005058 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 643561005059 Walker A/P-loop; other site 643561005060 ATP binding site [chemical binding]; other site 643561005061 Q-loop/lid; other site 643561005062 ABC transporter signature motif; other site 643561005063 Walker B; other site 643561005064 D-loop; other site 643561005065 H-loop/switch region; other site 643561005066 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 643561005067 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 643561005068 Walker A/P-loop; other site 643561005069 ATP binding site [chemical binding]; other site 643561005070 Q-loop/lid; other site 643561005071 ABC transporter signature motif; other site 643561005072 Walker B; other site 643561005073 D-loop; other site 643561005074 H-loop/switch region; other site 643561005075 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 643561005076 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 643561005077 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 643561005078 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 643561005079 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561005080 dimer interface [polypeptide binding]; other site 643561005081 conserved gate region; other site 643561005082 putative PBP binding loops; other site 643561005083 ABC-ATPase subunit interface; other site 643561005084 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 643561005085 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561005086 dimer interface [polypeptide binding]; other site 643561005087 conserved gate region; other site 643561005088 putative PBP binding loops; other site 643561005089 ABC-ATPase subunit interface; other site 643561005090 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 643561005091 homodimer interface [polypeptide binding]; other site 643561005092 homotetramer interface [polypeptide binding]; other site 643561005093 active site pocket [active] 643561005094 cleavage site 643561005095 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 643561005096 SxDxEG motif; other site 643561005097 active site 643561005098 metal binding site [ion binding]; metal-binding site 643561005099 homopentamer interface [polypeptide binding]; other site 643561005100 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 643561005101 aspartate racemase; Region: asp_race; TIGR00035 643561005102 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 643561005103 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 643561005104 GIY-YIG motif/motif A; other site 643561005105 active site 643561005106 catalytic site [active] 643561005107 putative DNA binding site [nucleotide binding]; other site 643561005108 metal binding site [ion binding]; metal-binding site 643561005109 UvrB/uvrC motif; Region: UVR; pfam02151 643561005110 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 643561005111 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 643561005112 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 643561005113 IHF dimer interface [polypeptide binding]; other site 643561005114 IHF - DNA interface [nucleotide binding]; other site 643561005115 periplasmic folding chaperone; Provisional; Region: PRK10788 643561005116 SurA N-terminal domain; Region: SurA_N_3; cl07813 643561005117 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 643561005118 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561005119 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 643561005120 argininosuccinate lyase; Provisional; Region: PRK00855 643561005121 active sites [active] 643561005122 tetramer interface [polypeptide binding]; other site 643561005123 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561005124 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 643561005125 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 643561005126 dimerization interface [polypeptide binding]; other site 643561005127 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 643561005128 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 643561005129 active site 643561005130 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 643561005131 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561005132 hypothetical protein; Validated; Region: PRK07586 643561005133 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 643561005134 PYR/PP interface [polypeptide binding]; other site 643561005135 dimer interface [polypeptide binding]; other site 643561005136 TPP binding site [chemical binding]; other site 643561005137 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 643561005138 TPP-binding site [chemical binding]; other site 643561005139 dimer interface [polypeptide binding]; other site 643561005140 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 643561005141 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643561005142 NAD(P) binding site [chemical binding]; other site 643561005143 active site 643561005144 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 643561005145 The single-domain 2,3-dihydroxybiphenyl 1,2-dioxygenases (BphC, EC 1.13.11.39) from Rhodococcus globerulus P6, BphC2-RGP6 and BphC3-RGP6, and similar proteins; Region: BphC2-C3-RGP6_C_like; cd08348 643561005146 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 643561005147 putative active site [active] 643561005148 putative metal binding site [ion binding]; other site 643561005149 Amino acid synthesis; Region: AA_synth; pfam06684 643561005150 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 643561005151 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 643561005152 NIPSNAP; Region: NIPSNAP; pfam07978 643561005153 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 643561005154 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 643561005155 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 643561005156 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 643561005157 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 643561005158 tetramerization interface [polypeptide binding]; other site 643561005159 NAD(P) binding site [chemical binding]; other site 643561005160 catalytic residues [active] 643561005161 succinic semialdehyde dehydrogenase; Region: PLN02278 643561005162 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 643561005163 tetramerization interface [polypeptide binding]; other site 643561005164 NAD(P) binding site [chemical binding]; other site 643561005165 catalytic residues [active] 643561005166 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 643561005167 putative FMN binding site [chemical binding]; other site 643561005168 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 643561005169 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 643561005170 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 643561005171 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 643561005172 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 643561005173 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 643561005174 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 643561005175 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 643561005176 NAD(P) binding site [chemical binding]; other site 643561005177 catalytic residues [active] 643561005178 Helix-turn-helix domain; Region: HTH_18; pfam12833 643561005179 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643561005180 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 643561005181 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 643561005182 dimerization interface [polypeptide binding]; other site 643561005183 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561005184 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561005185 dimer interface [polypeptide binding]; other site 643561005186 putative CheW interface [polypeptide binding]; other site 643561005187 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 643561005188 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 643561005189 inhibitor-cofactor binding pocket; inhibition site 643561005190 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561005191 catalytic residue [active] 643561005192 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 643561005193 Transcriptional regulator [Transcription]; Region: IclR; COG1414 643561005194 Bacterial transcriptional regulator; Region: IclR; pfam01614 643561005195 putative cation:proton antiport protein; Provisional; Region: PRK10669 643561005196 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 643561005197 TrkA-N domain; Region: TrkA_N; pfam02254 643561005198 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 643561005199 active site 643561005200 Zn binding site [ion binding]; other site 643561005201 helicase 45; Provisional; Region: PTZ00424 643561005202 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 643561005203 ATP binding site [chemical binding]; other site 643561005204 Mg++ binding site [ion binding]; other site 643561005205 motif III; other site 643561005206 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 643561005207 nucleotide binding region [chemical binding]; other site 643561005208 ATP-binding site [chemical binding]; other site 643561005209 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 643561005210 gamma subunit interface [polypeptide binding]; other site 643561005211 epsilon subunit interface [polypeptide binding]; other site 643561005212 LBP interface [polypeptide binding]; other site 643561005213 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 643561005214 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 643561005215 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 643561005216 ABC transporter; Region: ABC_tran_2; pfam12848 643561005217 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 643561005218 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 643561005219 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 643561005220 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 643561005221 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 643561005222 putative active site pocket [active] 643561005223 cleavage site 643561005224 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 643561005225 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 643561005226 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643561005227 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 643561005228 NAD(P) binding site [chemical binding]; other site 643561005229 catalytic residues [active] 643561005230 choline dehydrogenase; Validated; Region: PRK02106 643561005231 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 643561005232 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 643561005233 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 643561005234 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 643561005235 conjugal transfer surface exclusion protein TraT; Provisional; Region: PRK13731 643561005236 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 643561005237 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 643561005238 Predicted metal-binding protein [General function prediction only]; Region: COG3019 643561005239 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 643561005240 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 643561005241 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 643561005242 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 643561005243 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 643561005244 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 643561005245 Uncharacterized conserved protein [Function unknown]; Region: COG1284 643561005246 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 643561005247 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 643561005248 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 643561005249 Soluble P-type ATPase [General function prediction only]; Region: COG4087 643561005250 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 643561005251 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 643561005252 DNA binding residues [nucleotide binding] 643561005253 Permease; Region: Permease; pfam02405 643561005254 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 643561005255 mce related protein; Region: MCE; pfam02470 643561005256 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 643561005257 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 643561005258 putative substrate binding site [chemical binding]; other site 643561005259 putative ATP binding site [chemical binding]; other site 643561005260 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 643561005261 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 643561005262 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 643561005263 rRNA interaction site [nucleotide binding]; other site 643561005264 S8 interaction site; other site 643561005265 putative laminin-1 binding site; other site 643561005266 elongation factor Ts; Provisional; Region: tsf; PRK09377 643561005267 UBA/TS-N domain; Region: UBA; pfam00627 643561005268 Elongation factor TS; Region: EF_TS; pfam00889 643561005269 Elongation factor TS; Region: EF_TS; pfam00889 643561005270 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 643561005271 putative nucleotide binding site [chemical binding]; other site 643561005272 uridine monophosphate binding site [chemical binding]; other site 643561005273 homohexameric interface [polypeptide binding]; other site 643561005274 ribosome recycling factor; Reviewed; Region: frr; PRK00083 643561005275 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 643561005276 hinge region; other site 643561005277 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 643561005278 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 643561005279 catalytic residue [active] 643561005280 putative FPP diphosphate binding site; other site 643561005281 putative FPP binding hydrophobic cleft; other site 643561005282 dimer interface [polypeptide binding]; other site 643561005283 putative IPP diphosphate binding site; other site 643561005284 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 643561005285 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 643561005286 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 643561005287 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 643561005288 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 643561005289 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 643561005290 zinc metallopeptidase RseP; Provisional; Region: PRK10779 643561005291 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 643561005292 active site 643561005293 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 643561005294 protein binding site [polypeptide binding]; other site 643561005295 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 643561005296 putative substrate binding region [chemical binding]; other site 643561005297 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 643561005298 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 643561005299 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 643561005300 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 643561005301 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 643561005302 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 643561005303 Surface antigen; Region: Bac_surface_Ag; pfam01103 643561005304 periplasmic chaperone; Provisional; Region: PRK10780 643561005305 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 643561005306 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 643561005307 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 643561005308 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 643561005309 trimer interface [polypeptide binding]; other site 643561005310 active site 643561005311 UDP-GlcNAc binding site [chemical binding]; other site 643561005312 lipid binding site [chemical binding]; lipid-binding site 643561005313 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 643561005314 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 643561005315 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 643561005316 active site 643561005317 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 643561005318 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 643561005319 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 643561005320 RNA/DNA hybrid binding site [nucleotide binding]; other site 643561005321 active site 643561005322 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 643561005323 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 643561005324 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 643561005325 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 643561005326 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 643561005327 Secretin and TonB N terminus short domain; Region: STN; smart00965 643561005328 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 643561005329 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 643561005330 N-terminal plug; other site 643561005331 ligand-binding site [chemical binding]; other site 643561005332 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 643561005333 FecR protein; Region: FecR; pfam04773 643561005334 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 643561005335 RNA polymerase sigma factor; Reviewed; Region: PRK12527 643561005336 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 643561005337 DNA binding residues [nucleotide binding] 643561005338 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 643561005339 AMP binding site [chemical binding]; other site 643561005340 metal binding site [ion binding]; metal-binding site 643561005341 active site 643561005342 aminopeptidase N; Provisional; Region: pepN; PRK14015 643561005343 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 643561005344 active site 643561005345 Zn binding site [ion binding]; other site 643561005346 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 643561005347 Predicted ATPase [General function prediction only]; Region: COG4637 643561005348 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643561005349 Walker A/P-loop; other site 643561005350 ATP binding site [chemical binding]; other site 643561005351 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643561005352 ABC transporter signature motif; other site 643561005353 Walker B; other site 643561005354 D-loop; other site 643561005355 H-loop/switch region; other site 643561005356 peptide chain release factor 2; Validated; Region: prfB; PRK00578 643561005357 This domain is found in peptide chain release factors; Region: PCRF; smart00937 643561005358 RF-1 domain; Region: RF-1; pfam00472 643561005359 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 643561005360 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 643561005361 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 643561005362 catalytic site [active] 643561005363 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 643561005364 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 643561005365 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: BaFpgNei_N_2; cd08974 643561005366 putative DNA binding site [nucleotide binding]; other site 643561005367 catalytic residue [active] 643561005368 putative H2TH interface [polypeptide binding]; other site 643561005369 putative catalytic residues [active] 643561005370 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 643561005371 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 643561005372 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 643561005373 active site 643561005374 catalytic tetrad [active] 643561005375 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 643561005376 putative deacylase active site [active] 643561005377 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 643561005378 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 643561005379 Predicted aspartyl protease [General function prediction only]; Region: COG3577 643561005380 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 643561005381 catalytic motif [active] 643561005382 Catalytic residue [active] 643561005383 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 643561005384 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 643561005385 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 643561005386 FAD binding domain; Region: FAD_binding_4; pfam01565 643561005387 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 643561005388 argininosuccinate synthase; Validated; Region: PRK05370 643561005389 argininosuccinate synthase; Provisional; Region: PRK13820 643561005390 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 643561005391 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 643561005392 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 643561005393 ArsC family; Region: ArsC; pfam03960 643561005394 putative catalytic residues [active] 643561005395 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 643561005396 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 643561005397 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 643561005398 Sporulation related domain; Region: SPOR; pfam05036 643561005399 Colicin V production protein; Region: Colicin_V; pfam02674 643561005400 amidophosphoribosyltransferase; Provisional; Region: PRK09246 643561005401 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 643561005402 active site 643561005403 tetramer interface [polypeptide binding]; other site 643561005404 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 643561005405 active site 643561005406 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 643561005407 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 643561005408 homodimer interface [polypeptide binding]; other site 643561005409 substrate-cofactor binding pocket; other site 643561005410 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561005411 catalytic residue [active] 643561005412 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 643561005413 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 643561005414 active site 643561005415 HIGH motif; other site 643561005416 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 643561005417 active site 643561005418 KMSKS motif; other site 643561005419 Predicted membrane protein [Function unknown]; Region: COG3503 643561005420 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 643561005421 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 643561005422 putative substrate translocation pore; other site 643561005423 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 643561005424 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 643561005425 putative substrate translocation pore; other site 643561005426 Protein of unknown function DUF72; Region: DUF72; pfam01904 643561005427 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 643561005428 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 643561005429 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 643561005430 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 643561005431 RNA binding site [nucleotide binding]; other site 643561005432 HDOD domain; Region: HDOD; pfam08668 643561005433 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 643561005434 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 643561005435 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 643561005436 putative active site [active] 643561005437 metal binding site [ion binding]; metal-binding site 643561005438 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 643561005439 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 643561005440 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 643561005441 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 643561005442 active site 643561005443 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 643561005444 putative global regulator; Reviewed; Region: PRK09559 643561005445 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 643561005446 YceG-like family; Region: YceG; pfam02618 643561005447 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 643561005448 dimerization interface [polypeptide binding]; other site 643561005449 thymidylate kinase; Validated; Region: tmk; PRK00698 643561005450 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 643561005451 TMP-binding site; other site 643561005452 ATP-binding site [chemical binding]; other site 643561005453 DNA polymerase III subunit delta'; Validated; Region: PRK06964 643561005454 DNA polymerase III subunit delta'; Validated; Region: PRK08485 643561005455 PilZ domain; Region: PilZ; cl01260 643561005456 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 643561005457 active site 643561005458 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 643561005459 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 643561005460 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 643561005461 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 643561005462 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 643561005463 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 643561005464 Walker A/P-loop; other site 643561005465 ATP binding site [chemical binding]; other site 643561005466 Q-loop/lid; other site 643561005467 ABC transporter signature motif; other site 643561005468 Walker B; other site 643561005469 D-loop; other site 643561005470 H-loop/switch region; other site 643561005471 translocation protein TolB; Provisional; Region: tolB; PRK02889 643561005472 TolB amino-terminal domain; Region: TolB_N; pfam04052 643561005473 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 643561005474 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 643561005475 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 643561005476 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 643561005477 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 643561005478 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 643561005479 ligand binding site [chemical binding]; other site 643561005480 Rice tungro bacilliform virus P46 protein; Region: RTBV_P46; pfam06216 643561005481 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 643561005482 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 643561005483 binding surface 643561005484 TPR motif; other site 643561005485 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 643561005486 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 643561005487 putative ATP binding site [chemical binding]; other site 643561005488 putative substrate interface [chemical binding]; other site 643561005489 rod shape-determining protein MreC; Provisional; Region: PRK13922 643561005490 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 643561005491 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 643561005492 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 643561005493 dimerization interface [polypeptide binding]; other site 643561005494 ligand binding site [chemical binding]; other site 643561005495 ornithine cyclodeaminase; Validated; Region: PRK07340 643561005496 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 643561005497 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 643561005498 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 643561005499 active site 643561005500 substrate binding site [chemical binding]; other site 643561005501 Mg2+ binding site [ion binding]; other site 643561005502 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 643561005503 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 643561005504 Endoglucanase C-terminal domain/subunit and related proteins [Carbohydrate transport and metabolism]; Region: COG4305 643561005505 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 643561005506 CBD_II domain; Region: CBD_II; smart00637 643561005507 Cache domain; Region: Cache_1; pfam02743 643561005508 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561005509 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561005510 metal binding site [ion binding]; metal-binding site 643561005511 active site 643561005512 I-site; other site 643561005513 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561005514 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561005515 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 643561005516 putative dimerization interface [polypeptide binding]; other site 643561005517 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 643561005518 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561005519 Cytochrome c; Region: Cytochrom_C; cl11414 643561005520 Cytochrome c; Region: Cytochrom_C; cl11414 643561005521 Cytochrome c; Region: Cytochrom_C; pfam00034 643561005522 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 643561005523 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 643561005524 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 643561005525 catalytic residues [active] 643561005526 ribosome maturation protein RimP; Reviewed; Region: PRK00092 643561005527 Sm and related proteins; Region: Sm_like; cl00259 643561005528 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 643561005529 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 643561005530 NusA N-terminal domain; Region: NusA_N; pfam08529 643561005531 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 643561005532 RNA binding site [nucleotide binding]; other site 643561005533 homodimer interface [polypeptide binding]; other site 643561005534 NusA-like KH domain; Region: KH_5; pfam13184 643561005535 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 643561005536 G-X-X-G motif; other site 643561005537 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 643561005538 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 643561005539 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 643561005540 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 643561005541 translation initiation factor IF-2; Region: IF-2; TIGR00487 643561005542 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 643561005543 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 643561005544 G1 box; other site 643561005545 putative GEF interaction site [polypeptide binding]; other site 643561005546 GTP/Mg2+ binding site [chemical binding]; other site 643561005547 Switch I region; other site 643561005548 G2 box; other site 643561005549 G3 box; other site 643561005550 Switch II region; other site 643561005551 G4 box; other site 643561005552 G5 box; other site 643561005553 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 643561005554 Translation-initiation factor 2; Region: IF-2; pfam11987 643561005555 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 643561005556 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 643561005557 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 643561005558 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 643561005559 RNA binding site [nucleotide binding]; other site 643561005560 active site 643561005561 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 643561005562 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 643561005563 G1 box; other site 643561005564 putative GEF interaction site [polypeptide binding]; other site 643561005565 GTP/Mg2+ binding site [chemical binding]; other site 643561005566 Switch I region; other site 643561005567 G2 box; other site 643561005568 G3 box; other site 643561005569 Switch II region; other site 643561005570 G4 box; other site 643561005571 G5 box; other site 643561005572 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 643561005573 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 643561005574 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 643561005575 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 643561005576 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 643561005577 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 643561005578 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 643561005579 substrate binding site [chemical binding]; other site 643561005580 oxyanion hole (OAH) forming residues; other site 643561005581 trimer interface [polypeptide binding]; other site 643561005582 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 643561005583 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 643561005584 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 643561005585 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 643561005586 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 643561005587 DNA binding residues [nucleotide binding] 643561005588 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 643561005589 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 643561005590 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 643561005591 SmpB-tmRNA interface; other site 643561005592 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 643561005593 putative coenzyme Q binding site [chemical binding]; other site 643561005594 hypothetical protein; Validated; Region: PRK01777 643561005595 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 643561005596 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 643561005597 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 643561005598 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 643561005599 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 643561005600 active site 643561005601 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 643561005602 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 643561005603 putative active site [active] 643561005604 homotetrameric interface [polypeptide binding]; other site 643561005605 metal binding site [ion binding]; metal-binding site 643561005606 GMP synthase; Reviewed; Region: guaA; PRK00074 643561005607 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 643561005608 AMP/PPi binding site [chemical binding]; other site 643561005609 candidate oxyanion hole; other site 643561005610 catalytic triad [active] 643561005611 potential glutamine specificity residues [chemical binding]; other site 643561005612 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 643561005613 ATP Binding subdomain [chemical binding]; other site 643561005614 Ligand Binding sites [chemical binding]; other site 643561005615 Dimerization subdomain; other site 643561005616 integrase; Provisional; Region: PRK09692 643561005617 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 643561005618 active site 643561005619 Int/Topo IB signature motif; other site 643561005620 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 643561005621 AAA domain; Region: AAA_23; pfam13476 643561005622 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 643561005623 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 643561005624 putative active site [active] 643561005625 putative metal-binding site [ion binding]; other site 643561005626 Part of AAA domain; Region: AAA_19; pfam13245 643561005627 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 643561005628 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 643561005629 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 643561005630 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 643561005631 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561005632 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561005633 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 643561005634 dimerization interface [polypeptide binding]; other site 643561005635 putative effector binding pocket; other site 643561005636 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 643561005637 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 643561005638 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 643561005639 HlyD family secretion protein; Region: HlyD_3; pfam13437 643561005640 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 643561005641 Fusaric acid resistance protein family; Region: FUSC; pfam04632 643561005642 Transcriptional regulators [Transcription]; Region: MarR; COG1846 643561005643 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 643561005644 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 643561005645 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561005646 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 643561005647 dimerization interface [polypeptide binding]; other site 643561005648 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 643561005649 short chain dehydrogenase; Provisional; Region: PRK06179 643561005650 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 643561005651 NADP binding site [chemical binding]; other site 643561005652 active site 643561005653 steroid binding site; other site 643561005654 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 643561005655 classical (c) SDRs; Region: SDR_c; cd05233 643561005656 NAD(P) binding site [chemical binding]; other site 643561005657 active site 643561005658 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643561005659 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 643561005660 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 643561005661 N-terminal plug; other site 643561005662 ligand-binding site [chemical binding]; other site 643561005663 Cupin domain; Region: Cupin_2; cl17218 643561005664 Helix-turn-helix domain; Region: HTH_18; pfam12833 643561005665 Helix-turn-helix domain; Region: HTH_18; pfam12833 643561005666 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643561005667 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_8; cd07246 643561005668 putative dimer interface [polypeptide binding]; other site 643561005669 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 643561005670 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 643561005671 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643561005672 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643561005673 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 643561005674 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 643561005675 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 643561005676 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 643561005677 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 643561005678 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 643561005679 PAAR motif; Region: PAAR_motif; pfam05488 643561005680 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 643561005681 RHS Repeat; Region: RHS_repeat; cl11982 643561005682 RHS Repeat; Region: RHS_repeat; pfam05593 643561005683 RHS Repeat; Region: RHS_repeat; cl11982 643561005684 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 643561005685 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 643561005686 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 643561005687 RHS Repeat; Region: RHS_repeat; cl11982 643561005688 RHS protein; Region: RHS; pfam03527 643561005689 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 643561005690 Transposase domain (DUF772); Region: DUF772; pfam05598 643561005691 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 643561005692 DDE superfamily endonuclease; Region: DDE_4; cl17710 643561005693 hypothetical protein; Provisional; Region: PRK08317 643561005694 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 643561005695 S-adenosylmethionine binding site [chemical binding]; other site 643561005696 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 643561005697 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 643561005698 Rrf2 family protein; Region: rrf2_super; TIGR00738 643561005699 Transcriptional regulator; Region: Rrf2; pfam02082 643561005700 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 643561005701 GAF domain; Region: GAF_3; pfam13492 643561005702 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643561005703 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 643561005704 dimer interface [polypeptide binding]; other site 643561005705 phosphorylation site [posttranslational modification] 643561005706 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 643561005707 ATP binding site [chemical binding]; other site 643561005708 Mg2+ binding site [ion binding]; other site 643561005709 G-X-G motif; other site 643561005710 Response regulator receiver domain; Region: Response_reg; pfam00072 643561005711 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561005712 active site 643561005713 phosphorylation site [posttranslational modification] 643561005714 intermolecular recognition site; other site 643561005715 dimerization interface [polypeptide binding]; other site 643561005716 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 643561005717 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 643561005718 dimer interface [polypeptide binding]; other site 643561005719 ADP-ribose binding site [chemical binding]; other site 643561005720 active site 643561005721 nudix motif; other site 643561005722 metal binding site [ion binding]; metal-binding site 643561005723 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 643561005724 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 643561005725 active site 643561005726 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 643561005727 PAS domain; Region: PAS_9; pfam13426 643561005728 putative active site [active] 643561005729 heme pocket [chemical binding]; other site 643561005730 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561005731 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561005732 metal binding site [ion binding]; metal-binding site 643561005733 active site 643561005734 I-site; other site 643561005735 Transcriptional regulator [Transcription]; Region: IclR; COG1414 643561005736 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 643561005737 Bacterial transcriptional regulator; Region: IclR; pfam01614 643561005738 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561005739 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561005740 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561005741 glutathionine S-transferase; Provisional; Region: PRK10542 643561005742 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 643561005743 C-terminal domain interface [polypeptide binding]; other site 643561005744 GSH binding site (G-site) [chemical binding]; other site 643561005745 dimer interface [polypeptide binding]; other site 643561005746 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 643561005747 dimer interface [polypeptide binding]; other site 643561005748 N-terminal domain interface [polypeptide binding]; other site 643561005749 substrate binding pocket (H-site) [chemical binding]; other site 643561005750 Activator of aromatic catabolism; Region: XylR_N; pfam06505 643561005751 V4R domain; Region: V4R; pfam02830 643561005752 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 643561005753 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 643561005754 Walker A motif; other site 643561005755 ATP binding site [chemical binding]; other site 643561005756 Walker B motif; other site 643561005757 arginine finger; other site 643561005758 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 643561005759 NAD-dependent benzaldehyde dehydrogenase II-like; Region: ALDH_BenzADH; cd07152 643561005760 NAD(P) binding site [chemical binding]; other site 643561005761 catalytic residues [active] 643561005762 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 643561005763 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643561005764 NAD(P) binding site [chemical binding]; other site 643561005765 3-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK12428 643561005766 active site 643561005767 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 643561005768 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 643561005769 N-terminal plug; other site 643561005770 ligand-binding site [chemical binding]; other site 643561005771 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 643561005772 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 643561005773 Walker A/P-loop; other site 643561005774 ATP binding site [chemical binding]; other site 643561005775 Q-loop/lid; other site 643561005776 ABC transporter signature motif; other site 643561005777 Walker B; other site 643561005778 D-loop; other site 643561005779 H-loop/switch region; other site 643561005780 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 643561005781 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 643561005782 putative ligand binding residues [chemical binding]; other site 643561005783 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 643561005784 dimer interface [polypeptide binding]; other site 643561005785 putative PBP binding regions; other site 643561005786 ABC-ATPase subunit interface; other site 643561005787 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 643561005788 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 643561005789 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 643561005790 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 643561005791 NAD(P) binding site [chemical binding]; other site 643561005792 catalytic residues [active] 643561005793 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 643561005794 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 643561005795 putative DNA binding site [nucleotide binding]; other site 643561005796 putative Zn2+ binding site [ion binding]; other site 643561005797 AsnC family; Region: AsnC_trans_reg; pfam01037 643561005798 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 643561005799 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 643561005800 S-adenosylmethionine binding site [chemical binding]; other site 643561005801 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 643561005802 YccA-like proteins; Region: YccA_like; cd10433 643561005803 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 643561005804 Hemin uptake protein hemP; Region: hemP; pfam10636 643561005805 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 643561005806 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 643561005807 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 643561005808 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 643561005809 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 643561005810 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 643561005811 Phasin protein; Region: Phasin_2; pfam09361 643561005812 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 643561005813 active site 643561005814 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 643561005815 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 643561005816 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 643561005817 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 643561005818 active site 643561005819 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 643561005820 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 643561005821 dimerization interface [polypeptide binding]; other site 643561005822 ligand binding site [chemical binding]; other site 643561005823 NADP binding site [chemical binding]; other site 643561005824 catalytic site [active] 643561005825 RmuC family; Region: RmuC; pfam02646 643561005826 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 643561005827 Major Facilitator Superfamily; Region: MFS_1; pfam07690 643561005828 putative substrate translocation pore; other site 643561005829 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 643561005830 chromosome condensation membrane protein; Provisional; Region: PRK14196 643561005831 DctM-like transporters; Region: DctM; pfam06808 643561005832 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 643561005833 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 643561005834 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 643561005835 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 643561005836 active site 643561005837 Zn binding site [ion binding]; other site 643561005838 5-oxoprolinase; Region: PLN02666 643561005839 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 643561005840 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 643561005841 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 643561005842 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 643561005843 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 643561005844 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 643561005845 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 643561005846 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 643561005847 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 643561005848 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 643561005849 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 643561005850 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 643561005851 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 643561005852 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 643561005853 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 643561005854 tetratricopeptide repeat protein; Provisional; Region: PRK11788 643561005855 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 643561005856 binding surface 643561005857 TPR motif; other site 643561005858 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 643561005859 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 643561005860 IHF dimer interface [polypeptide binding]; other site 643561005861 IHF - DNA interface [nucleotide binding]; other site 643561005862 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 643561005863 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 643561005864 RNA binding site [nucleotide binding]; other site 643561005865 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 643561005866 RNA binding site [nucleotide binding]; other site 643561005867 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 643561005868 RNA binding site [nucleotide binding]; other site 643561005869 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 643561005870 RNA binding site [nucleotide binding]; other site 643561005871 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 643561005872 RNA binding site [nucleotide binding]; other site 643561005873 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 643561005874 RNA binding site [nucleotide binding]; other site 643561005875 bifunctional 3-phosphoshikimate 1-carboxyvinyltransferase/cytidine monophosphate kinase; Provisional; Region: PRK11860 643561005876 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 643561005877 hinge; other site 643561005878 active site 643561005879 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 643561005880 CMP-binding site; other site 643561005881 The sites determining sugar specificity; other site 643561005882 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 643561005883 prephenate dehydrogenase; Validated; Region: PRK08507 643561005884 Chorismate mutase type II; Region: CM_2; smart00830 643561005885 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 643561005886 Prephenate dehydratase; Region: PDT; pfam00800 643561005887 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 643561005888 putative L-Phe binding site [chemical binding]; other site 643561005889 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 643561005890 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 643561005891 catalytic residue [active] 643561005892 DNA gyrase subunit A; Validated; Region: PRK05560 643561005893 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 643561005894 CAP-like domain; other site 643561005895 active site 643561005896 primary dimer interface [polypeptide binding]; other site 643561005897 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 643561005898 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 643561005899 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 643561005900 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 643561005901 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 643561005902 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 643561005903 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 643561005904 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 643561005905 ligand binding site [chemical binding]; other site 643561005906 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 643561005907 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 643561005908 S-adenosylmethionine binding site [chemical binding]; other site 643561005909 phosphoglycolate phosphatase; Provisional; Region: PRK13222 643561005910 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 643561005911 motif II; other site 643561005912 Members of the SGNH-hydrolase superfamily, 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_like_1; cd01832 643561005913 active site 643561005914 catalytic triad [active] 643561005915 oxyanion hole [active] 643561005916 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 643561005917 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643561005918 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 643561005919 dimer interface [polypeptide binding]; other site 643561005920 phosphorylation site [posttranslational modification] 643561005921 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 643561005922 ATP binding site [chemical binding]; other site 643561005923 Mg2+ binding site [ion binding]; other site 643561005924 G-X-G motif; other site 643561005925 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 643561005926 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561005927 active site 643561005928 phosphorylation site [posttranslational modification] 643561005929 intermolecular recognition site; other site 643561005930 dimerization interface [polypeptide binding]; other site 643561005931 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 643561005932 DNA binding site [nucleotide binding] 643561005933 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 643561005934 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 643561005935 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561005936 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 643561005937 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 643561005938 trimer interface [polypeptide binding]; other site 643561005939 eyelet of channel; other site 643561005940 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 643561005941 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 643561005942 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561005943 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561005944 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561005945 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 643561005946 putative dimerization interface [polypeptide binding]; other site 643561005947 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 643561005948 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 643561005949 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 643561005950 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 643561005951 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 643561005952 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 643561005953 catalytic residue [active] 643561005954 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 643561005955 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 643561005956 Fasciclin domain; Region: Fasciclin; pfam02469 643561005957 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 643561005958 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 643561005959 NAD binding site [chemical binding]; other site 643561005960 homotetramer interface [polypeptide binding]; other site 643561005961 homodimer interface [polypeptide binding]; other site 643561005962 substrate binding site [chemical binding]; other site 643561005963 active site 643561005964 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 643561005965 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 643561005966 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 643561005967 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561005968 dimer interface [polypeptide binding]; other site 643561005969 conserved gate region; other site 643561005970 putative PBP binding loops; other site 643561005971 ABC-ATPase subunit interface; other site 643561005972 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 643561005973 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 643561005974 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561005975 dimer interface [polypeptide binding]; other site 643561005976 conserved gate region; other site 643561005977 putative PBP binding loops; other site 643561005978 ABC-ATPase subunit interface; other site 643561005979 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 643561005980 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 643561005981 Walker A/P-loop; other site 643561005982 ATP binding site [chemical binding]; other site 643561005983 Q-loop/lid; other site 643561005984 ABC transporter signature motif; other site 643561005985 Walker B; other site 643561005986 D-loop; other site 643561005987 H-loop/switch region; other site 643561005988 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 643561005989 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 643561005990 Walker A/P-loop; other site 643561005991 ATP binding site [chemical binding]; other site 643561005992 Q-loop/lid; other site 643561005993 ABC transporter signature motif; other site 643561005994 Walker B; other site 643561005995 D-loop; other site 643561005996 H-loop/switch region; other site 643561005997 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 643561005998 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 643561005999 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 643561006000 putative active site [active] 643561006001 heme pocket [chemical binding]; other site 643561006002 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 643561006003 putative active site [active] 643561006004 heme pocket [chemical binding]; other site 643561006005 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561006006 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561006007 metal binding site [ion binding]; metal-binding site 643561006008 active site 643561006009 I-site; other site 643561006010 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 643561006011 Domain of unknown function DUF20; Region: UPF0118; pfam01594 643561006012 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 643561006013 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 643561006014 TPP-binding site [chemical binding]; other site 643561006015 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 643561006016 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 643561006017 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 643561006018 E3 interaction surface; other site 643561006019 lipoyl attachment site [posttranslational modification]; other site 643561006020 e3 binding domain; Region: E3_binding; pfam02817 643561006021 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 643561006022 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 643561006023 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 643561006024 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 643561006025 Predicted ATPase [General function prediction only]; Region: COG1485 643561006026 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 643561006027 active site 643561006028 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 643561006029 DEAD/DEAH box helicase; Region: DEAD; pfam00270 643561006030 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 643561006031 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 643561006032 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 643561006033 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 643561006034 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 643561006035 putative active site [active] 643561006036 putative PHP Thumb interface [polypeptide binding]; other site 643561006037 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 643561006038 generic binding surface II; other site 643561006039 generic binding surface I; other site 643561006040 Uncharacterized conserved protein [Function unknown]; Region: COG2127 643561006041 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 643561006042 Clp amino terminal domain; Region: Clp_N; pfam02861 643561006043 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 643561006044 Walker A motif; other site 643561006045 ATP binding site [chemical binding]; other site 643561006046 Walker B motif; other site 643561006047 arginine finger; other site 643561006048 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 643561006049 Walker A motif; other site 643561006050 ATP binding site [chemical binding]; other site 643561006051 Walker B motif; other site 643561006052 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 643561006053 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 643561006054 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 643561006055 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643561006056 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 643561006057 Transglycosylase SLT domain; Region: SLT_2; pfam13406 643561006058 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 643561006059 N-acetyl-D-glucosamine binding site [chemical binding]; other site 643561006060 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 643561006061 exonuclease I; Provisional; Region: sbcB; PRK11779 643561006062 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 643561006063 active site 643561006064 catalytic site [active] 643561006065 substrate binding site [chemical binding]; other site 643561006066 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 643561006067 NAD-dependent deacetylase; Provisional; Region: PRK05333 643561006068 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 643561006069 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 643561006070 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 643561006071 Walker A motif; other site 643561006072 ATP binding site [chemical binding]; other site 643561006073 Walker B motif; other site 643561006074 arginine finger; other site 643561006075 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 643561006076 Protein of unknown function (DUF779); Region: DUF779; pfam05610 643561006077 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 643561006078 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 643561006079 NAD binding site [chemical binding]; other site 643561006080 substrate binding site [chemical binding]; other site 643561006081 catalytic Zn binding site [ion binding]; other site 643561006082 tetramer interface [polypeptide binding]; other site 643561006083 structural Zn binding site [ion binding]; other site 643561006084 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 643561006085 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 643561006086 NAD(P) binding site [chemical binding]; other site 643561006087 catalytic residues [active] 643561006088 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 643561006089 HSP70 interaction site [polypeptide binding]; other site 643561006090 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 643561006091 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643561006092 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 643561006093 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643561006094 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 643561006095 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 643561006096 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 643561006097 DNA binding site [nucleotide binding] 643561006098 Predicted integral membrane protein [Function unknown]; Region: COG5616 643561006099 cytosine deaminase; Validated; Region: PRK07572 643561006100 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 643561006101 active site 643561006102 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 643561006103 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 643561006104 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_15; cd07264 643561006105 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 643561006106 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 643561006107 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643561006108 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 643561006109 TM-ABC transporter signature motif; other site 643561006110 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4603 643561006111 TM-ABC transporter signature motif; other site 643561006112 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 643561006113 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 643561006114 Walker A/P-loop; other site 643561006115 ATP binding site [chemical binding]; other site 643561006116 Q-loop/lid; other site 643561006117 ABC transporter signature motif; other site 643561006118 Walker B; other site 643561006119 D-loop; other site 643561006120 H-loop/switch region; other site 643561006121 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 643561006122 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 643561006123 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 643561006124 putative ligand binding site [chemical binding]; other site 643561006125 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 643561006126 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 643561006127 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 643561006128 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643561006129 Walker A/P-loop; other site 643561006130 ATP binding site [chemical binding]; other site 643561006131 Q-loop/lid; other site 643561006132 ABC transporter signature motif; other site 643561006133 Walker B; other site 643561006134 D-loop; other site 643561006135 H-loop/switch region; other site 643561006136 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 643561006137 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 643561006138 E3 interaction surface; other site 643561006139 lipoyl attachment site [posttranslational modification]; other site 643561006140 HlyD family secretion protein; Region: HlyD_3; pfam13437 643561006141 Transposase domain (DUF772); Region: DUF772; pfam05598 643561006142 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 643561006143 DDE superfamily endonuclease; Region: DDE_4; cl17710 643561006144 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 643561006145 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 643561006146 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 643561006147 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 643561006148 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 643561006149 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 643561006150 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 643561006151 active site 643561006152 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 643561006153 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 643561006154 tetramer interface [polypeptide binding]; other site 643561006155 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561006156 catalytic residue [active] 643561006157 enoyl-CoA hydratase; Provisional; Region: PRK06142 643561006158 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 643561006159 substrate binding site [chemical binding]; other site 643561006160 oxyanion hole (OAH) forming residues; other site 643561006161 trimer interface [polypeptide binding]; other site 643561006162 Predicted permeases [General function prediction only]; Region: COG0679 643561006163 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 643561006164 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561006165 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 643561006166 dimerization interface [polypeptide binding]; other site 643561006167 substrate binding pocket [chemical binding]; other site 643561006168 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 643561006169 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 643561006170 C-terminal domain interface [polypeptide binding]; other site 643561006171 GSH binding site (G-site) [chemical binding]; other site 643561006172 dimer interface [polypeptide binding]; other site 643561006173 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 643561006174 N-terminal domain interface [polypeptide binding]; other site 643561006175 putative dimer interface [polypeptide binding]; other site 643561006176 active site 643561006177 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 643561006178 hypothetical protein; Validated; Region: PRK00110 643561006179 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 643561006180 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 643561006181 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 643561006182 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 643561006183 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 643561006184 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 643561006185 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 643561006186 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 643561006187 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 643561006188 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 643561006189 Maf-like protein; Region: Maf; pfam02545 643561006190 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 643561006191 active site 643561006192 dimer interface [polypeptide binding]; other site 643561006193 ribonuclease G; Provisional; Region: PRK11712 643561006194 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 643561006195 homodimer interface [polypeptide binding]; other site 643561006196 oligonucleotide binding site [chemical binding]; other site 643561006197 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 643561006198 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 643561006199 PAS domain; Region: PAS_9; pfam13426 643561006200 putative active site [active] 643561006201 heme pocket [chemical binding]; other site 643561006202 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643561006203 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 643561006204 dimer interface [polypeptide binding]; other site 643561006205 phosphorylation site [posttranslational modification] 643561006206 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 643561006207 ATP binding site [chemical binding]; other site 643561006208 Mg2+ binding site [ion binding]; other site 643561006209 G-X-G motif; other site 643561006210 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 643561006211 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 643561006212 catalytic site [active] 643561006213 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 643561006214 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 643561006215 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 643561006216 active site 643561006217 FMN binding site [chemical binding]; other site 643561006218 substrate binding site [chemical binding]; other site 643561006219 homotetramer interface [polypeptide binding]; other site 643561006220 catalytic residue [active] 643561006221 classical (c) SDRs; Region: SDR_c; cd05233 643561006222 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 643561006223 NAD(P) binding site [chemical binding]; other site 643561006224 active site 643561006225 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 643561006226 MarR family; Region: MarR; pfam01047 643561006227 MarR family; Region: MarR_2; cl17246 643561006228 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 643561006229 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 643561006230 substrate binding site [chemical binding]; other site 643561006231 oxyanion hole (OAH) forming residues; other site 643561006232 trimer interface [polypeptide binding]; other site 643561006233 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 643561006234 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 643561006235 active site 643561006236 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 643561006237 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 643561006238 acyl-activating enzyme (AAE) consensus motif; other site 643561006239 AMP binding site [chemical binding]; other site 643561006240 active site 643561006241 CoA binding site [chemical binding]; other site 643561006242 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 643561006243 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 643561006244 putative ligand binding site [chemical binding]; other site 643561006245 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 643561006246 TM-ABC transporter signature motif; other site 643561006247 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 643561006248 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 643561006249 TM-ABC transporter signature motif; other site 643561006250 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 643561006251 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 643561006252 Walker A/P-loop; other site 643561006253 ATP binding site [chemical binding]; other site 643561006254 Q-loop/lid; other site 643561006255 ABC transporter signature motif; other site 643561006256 Walker B; other site 643561006257 D-loop; other site 643561006258 H-loop/switch region; other site 643561006259 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 643561006260 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 643561006261 Walker A/P-loop; other site 643561006262 ATP binding site [chemical binding]; other site 643561006263 Q-loop/lid; other site 643561006264 ABC transporter signature motif; other site 643561006265 Walker B; other site 643561006266 D-loop; other site 643561006267 H-loop/switch region; other site 643561006268 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 643561006269 homotrimer interaction site [polypeptide binding]; other site 643561006270 putative active site [active] 643561006271 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 643561006272 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 643561006273 substrate binding pocket [chemical binding]; other site 643561006274 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 643561006275 methionine aminotransferase; Validated; Region: PRK09082 643561006276 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 643561006277 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561006278 homodimer interface [polypeptide binding]; other site 643561006279 catalytic residue [active] 643561006280 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 643561006281 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561006282 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 643561006283 substrate binding site [chemical binding]; other site 643561006284 dimerization interface [polypeptide binding]; other site 643561006285 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 643561006286 putative active site [active] 643561006287 Predicted permeases [General function prediction only]; Region: COG0795 643561006288 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 643561006289 Predicted permeases [General function prediction only]; Region: COG0795 643561006290 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 643561006291 multifunctional aminopeptidase A; Provisional; Region: PRK00913 643561006292 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 643561006293 interface (dimer of trimers) [polypeptide binding]; other site 643561006294 Substrate-binding/catalytic site; other site 643561006295 Zn-binding sites [ion binding]; other site 643561006296 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 643561006297 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 643561006298 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 643561006299 dimerization interface [polypeptide binding]; other site 643561006300 ligand binding site [chemical binding]; other site 643561006301 LysE type translocator; Region: LysE; cl00565 643561006302 Helix-turn-helix domain; Region: HTH_17; pfam12728 643561006303 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 643561006304 Citrate synthase; Region: Citrate_synt; pfam00285 643561006305 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 643561006306 dimer interface [polypeptide binding]; other site 643561006307 active site 643561006308 oxalacetate/citrate binding site [chemical binding]; other site 643561006309 citrylCoA binding site [chemical binding]; other site 643561006310 coenzyme A binding site [chemical binding]; other site 643561006311 catalytic triad [active] 643561006312 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 643561006313 CoA-transferase family III; Region: CoA_transf_3; pfam02515 643561006314 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 643561006315 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 643561006316 dimerization interface [polypeptide binding]; other site 643561006317 NAD binding site [chemical binding]; other site 643561006318 ligand binding site [chemical binding]; other site 643561006319 catalytic site [active] 643561006320 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 643561006321 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 643561006322 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 643561006323 acyl-activating enzyme (AAE) consensus motif; other site 643561006324 putative AMP binding site [chemical binding]; other site 643561006325 putative active site [active] 643561006326 putative CoA binding site [chemical binding]; other site 643561006327 PilZ domain; Region: PilZ; pfam07238 643561006328 Biofilm formation and stress response factor; Region: BsmA; pfam10014 643561006329 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 643561006330 Ligand Binding Site [chemical binding]; other site 643561006331 Transposase domain (DUF772); Region: DUF772; pfam05598 643561006332 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 643561006333 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 643561006334 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 643561006335 potassium uptake protein; Region: kup; TIGR00794 643561006336 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561006337 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643561006338 short chain dehydrogenase; Provisional; Region: PRK07023 643561006339 NAD(P) binding site [chemical binding]; other site 643561006340 active site 643561006341 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 643561006342 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 643561006343 active site 643561006344 PAS domain; Region: PAS_8; pfam13188 643561006345 PAS domain; Region: PAS; smart00091 643561006346 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 643561006347 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 643561006348 dimer interface [polypeptide binding]; other site 643561006349 phosphorylation site [posttranslational modification] 643561006350 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 643561006351 ATP binding site [chemical binding]; other site 643561006352 Mg2+ binding site [ion binding]; other site 643561006353 G-X-G motif; other site 643561006354 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 643561006355 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561006356 active site 643561006357 phosphorylation site [posttranslational modification] 643561006358 intermolecular recognition site; other site 643561006359 dimerization interface [polypeptide binding]; other site 643561006360 H+ Antiporter protein; Region: 2A0121; TIGR00900 643561006361 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 643561006362 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 643561006363 DNA binding residues [nucleotide binding] 643561006364 putative dimer interface [polypeptide binding]; other site 643561006365 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 643561006366 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 643561006367 glycine dehydrogenase; Provisional; Region: PRK05367 643561006368 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 643561006369 tetramer interface [polypeptide binding]; other site 643561006370 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561006371 catalytic residue [active] 643561006372 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 643561006373 tetramer interface [polypeptide binding]; other site 643561006374 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561006375 catalytic residue [active] 643561006376 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 643561006377 lipoyl attachment site [posttranslational modification]; other site 643561006378 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 643561006379 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 643561006380 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 643561006381 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 643561006382 putative DNA binding site [nucleotide binding]; other site 643561006383 putative Zn2+ binding site [ion binding]; other site 643561006384 AsnC family; Region: AsnC_trans_reg; pfam01037 643561006385 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 643561006386 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643561006387 Walker A/P-loop; other site 643561006388 ATP binding site [chemical binding]; other site 643561006389 Q-loop/lid; other site 643561006390 ABC transporter signature motif; other site 643561006391 Walker B; other site 643561006392 D-loop; other site 643561006393 H-loop/switch region; other site 643561006394 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 643561006395 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643561006396 TM-ABC transporter signature motif; other site 643561006397 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 643561006398 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 643561006399 zinc binding site [ion binding]; other site 643561006400 putative ligand binding site [chemical binding]; other site 643561006401 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 643561006402 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 643561006403 tetramer interface [polypeptide binding]; other site 643561006404 active site 643561006405 Mg2+/Mn2+ binding site [ion binding]; other site 643561006406 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 643561006407 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 643561006408 PYR/PP interface [polypeptide binding]; other site 643561006409 dimer interface [polypeptide binding]; other site 643561006410 TPP binding site [chemical binding]; other site 643561006411 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 643561006412 TPP-binding site; other site 643561006413 P-aminobenzoate N-oxygenase AurF; Region: AurF; pfam11583 643561006414 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 643561006415 active site 643561006416 metal-binding site 643561006417 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 643561006418 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 643561006419 active site 643561006420 dimer interface [polypeptide binding]; other site 643561006421 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 643561006422 Ligand Binding Site [chemical binding]; other site 643561006423 Molecular Tunnel; other site 643561006424 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 643561006425 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 643561006426 NAD(P) binding site [chemical binding]; other site 643561006427 catalytic residues [active] 643561006428 Methyltransferase domain; Region: Methyltransf_23; pfam13489 643561006429 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 643561006430 S-adenosylmethionine binding site [chemical binding]; other site 643561006431 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 643561006432 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 643561006433 active site 643561006434 metal binding site [ion binding]; metal-binding site 643561006435 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 643561006436 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 643561006437 hydroxyglutarate oxidase; Provisional; Region: PRK11728 643561006438 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 643561006439 short chain dehydrogenase; Provisional; Region: PRK06949 643561006440 classical (c) SDRs; Region: SDR_c; cd05233 643561006441 NAD(P) binding site [chemical binding]; other site 643561006442 active site 643561006443 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 643561006444 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 643561006445 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 643561006446 tetramer interface [polypeptide binding]; other site 643561006447 heme binding pocket [chemical binding]; other site 643561006448 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 643561006449 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 643561006450 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 643561006451 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 643561006452 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 643561006453 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643561006454 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643561006455 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 643561006456 conserved cys residue [active] 643561006457 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 643561006458 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 643561006459 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 643561006460 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 643561006461 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 643561006462 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 643561006463 Transposase; Region: DEDD_Tnp_IS110; pfam01548 643561006464 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 643561006465 Transcriptional regulator [Transcription]; Region: IclR; COG1414 643561006466 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 643561006467 Bacterial transcriptional regulator; Region: IclR; pfam01614 643561006468 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561006469 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 643561006470 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 643561006471 active site 643561006472 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561006473 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 643561006474 hypothetical protein; Validated; Region: PRK06201 643561006475 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 643561006476 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 643561006477 ligand binding site [chemical binding]; other site 643561006478 NAD binding site [chemical binding]; other site 643561006479 dimerization interface [polypeptide binding]; other site 643561006480 catalytic site [active] 643561006481 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561006482 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561006483 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 643561006484 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 643561006485 active site 643561006486 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 643561006487 Strictosidine synthase; Region: Str_synth; pfam03088 643561006488 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 643561006489 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 643561006490 dimer interface [polypeptide binding]; other site 643561006491 active site 643561006492 heme binding site [chemical binding]; other site 643561006493 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 643561006494 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 643561006495 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 643561006496 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 643561006497 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 643561006498 PAS domain; Region: PAS_9; pfam13426 643561006499 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 643561006500 putative active site [active] 643561006501 heme pocket [chemical binding]; other site 643561006502 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 643561006503 DNA binding residues [nucleotide binding] 643561006504 dimerization interface [polypeptide binding]; other site 643561006505 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 643561006506 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 643561006507 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 643561006508 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 643561006509 Protein of unknown function, DUF482; Region: DUF482; pfam04339 643561006510 NAD synthetase; Provisional; Region: PRK13981 643561006511 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 643561006512 multimer interface [polypeptide binding]; other site 643561006513 active site 643561006514 catalytic triad [active] 643561006515 protein interface 1 [polypeptide binding]; other site 643561006516 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 643561006517 homodimer interface [polypeptide binding]; other site 643561006518 NAD binding pocket [chemical binding]; other site 643561006519 ATP binding pocket [chemical binding]; other site 643561006520 Mg binding site [ion binding]; other site 643561006521 active-site loop [active] 643561006522 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 643561006523 Nitrogen regulatory protein P-II; Region: P-II; smart00938 643561006524 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 643561006525 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 643561006526 RDD family; Region: RDD; pfam06271 643561006527 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 643561006528 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 643561006529 RNA polymerase factor sigma-70; Validated; Region: PRK09047 643561006530 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 643561006531 DNA binding residues [nucleotide binding] 643561006532 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 643561006533 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 643561006534 PYR/PP interface [polypeptide binding]; other site 643561006535 dimer interface [polypeptide binding]; other site 643561006536 TPP binding site [chemical binding]; other site 643561006537 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 643561006538 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 643561006539 TPP-binding site [chemical binding]; other site 643561006540 dimer interface [polypeptide binding]; other site 643561006541 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 643561006542 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 643561006543 putative valine binding site [chemical binding]; other site 643561006544 dimer interface [polypeptide binding]; other site 643561006545 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 643561006546 ketol-acid reductoisomerase; Provisional; Region: PRK05479 643561006547 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 643561006548 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 643561006549 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 643561006550 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 643561006551 2-isopropylmalate synthase; Validated; Region: PRK00915 643561006552 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 643561006553 active site 643561006554 catalytic residues [active] 643561006555 metal binding site [ion binding]; metal-binding site 643561006556 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 643561006557 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 643561006558 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 643561006559 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 643561006560 Transcriptional regulator [Transcription]; Region: IclR; COG1414 643561006561 Bacterial transcriptional regulator; Region: IclR; pfam01614 643561006562 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 643561006563 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 643561006564 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 643561006565 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 643561006566 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 643561006567 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 643561006568 active site 643561006569 catalytic residues [active] 643561006570 metal binding site [ion binding]; metal-binding site 643561006571 PII uridylyl-transferase; Provisional; Region: PRK03059 643561006572 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 643561006573 metal binding triad; other site 643561006574 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 643561006575 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643561006576 Zn2+ binding site [ion binding]; other site 643561006577 Mg2+ binding site [ion binding]; other site 643561006578 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 643561006579 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 643561006580 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 643561006581 active site 643561006582 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 643561006583 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 643561006584 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 643561006585 dimerization interface [polypeptide binding]; other site 643561006586 ATP binding site [chemical binding]; other site 643561006587 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 643561006588 dimerization interface [polypeptide binding]; other site 643561006589 ATP binding site [chemical binding]; other site 643561006590 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 643561006591 putative active site [active] 643561006592 catalytic triad [active] 643561006593 N-acetylmuramoyl-L-alanine amidase; Region: Amidase_2; pfam01510 643561006594 substrate binding site [chemical binding]; other site 643561006595 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 643561006596 GAF domain; Region: GAF; pfam01590 643561006597 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 643561006598 metal binding site [ion binding]; metal-binding site 643561006599 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 643561006600 Protein of unknown function (DUF808); Region: DUF808; pfam05661 643561006601 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 643561006602 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643561006603 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 643561006604 dimer interface [polypeptide binding]; other site 643561006605 phosphorylation site [posttranslational modification] 643561006606 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 643561006607 ATP binding site [chemical binding]; other site 643561006608 Mg2+ binding site [ion binding]; other site 643561006609 G-X-G motif; other site 643561006610 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 643561006611 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 643561006612 Methyltransferase domain; Region: Methyltransf_12; pfam08242 643561006613 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 643561006614 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 643561006615 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 643561006616 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 643561006617 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 643561006618 homodimer interface [polypeptide binding]; other site 643561006619 substrate-cofactor binding pocket; other site 643561006620 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561006621 catalytic residue [active] 643561006622 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 643561006623 Peptidase family U32; Region: Peptidase_U32; pfam01136 643561006624 Collagenase; Region: DUF3656; pfam12392 643561006625 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 643561006626 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 643561006627 dimerization interface [polypeptide binding]; other site 643561006628 ligand binding site [chemical binding]; other site 643561006629 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 643561006630 nucleoside/Zn binding site; other site 643561006631 dimer interface [polypeptide binding]; other site 643561006632 catalytic motif [active] 643561006633 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 643561006634 dimer interface [polypeptide binding]; other site 643561006635 catalytic triad [active] 643561006636 cyclase homology domain; Region: CHD; cd07302 643561006637 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 643561006638 nucleotidyl binding site; other site 643561006639 metal binding site [ion binding]; metal-binding site 643561006640 dimer interface [polypeptide binding]; other site 643561006641 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 643561006642 phosphopeptide binding site; other site 643561006643 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 643561006644 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 643561006645 active site 643561006646 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 643561006647 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 643561006648 active site 643561006649 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 643561006650 putative active site [active] 643561006651 putative substrate binding site [chemical binding]; other site 643561006652 ATP binding site [chemical binding]; other site 643561006653 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 643561006654 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 643561006655 ligand binding site [chemical binding]; other site 643561006656 flexible hinge region; other site 643561006657 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 643561006658 enoyl-CoA hydratase; Provisional; Region: PRK07511 643561006659 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 643561006660 substrate binding site [chemical binding]; other site 643561006661 oxyanion hole (OAH) forming residues; other site 643561006662 trimer interface [polypeptide binding]; other site 643561006663 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 643561006664 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 643561006665 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 643561006666 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 643561006667 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 643561006668 thiamine phosphate binding site [chemical binding]; other site 643561006669 active site 643561006670 pyrophosphate binding site [ion binding]; other site 643561006671 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 643561006672 ThiS interaction site; other site 643561006673 putative active site [active] 643561006674 tetramer interface [polypeptide binding]; other site 643561006675 sulfur carrier protein ThiS; Provisional; Region: PRK06944 643561006676 charged pocket; other site 643561006677 hydrophobic patch; other site 643561006678 FAD dependent oxidoreductase; Region: DAO; pfam01266 643561006679 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 643561006680 dimer interface [polypeptide binding]; other site 643561006681 substrate binding site [chemical binding]; other site 643561006682 ATP binding site [chemical binding]; other site 643561006683 Catalytic domain of Protein Kinases; Region: PKc; cd00180 643561006684 active site 643561006685 ATP binding site [chemical binding]; other site 643561006686 substrate binding site [chemical binding]; other site 643561006687 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 643561006688 activation loop (A-loop); other site 643561006689 cyclase homology domain; Region: CHD; cd07302 643561006690 ribosomal natural product, two-chain TOMM family; Region: RNP_Burkhold; TIGR03795 643561006691 ribosomal natural product, two-chain TOMM family; Region: RNP_Burkhold; TIGR03795 643561006692 Leucine carboxyl methyltransferase; Region: LCM; cl01306 643561006693 Zeta toxin; Region: Zeta_toxin; pfam06414 643561006694 bacteriocin biosynthesis cyclodehydratase domain; Region: cyclo_dehyd_2; TIGR03882 643561006695 YcaO-like family; Region: YcaO; pfam02624 643561006696 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 643561006697 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 643561006698 phosphopeptide binding site; other site 643561006699 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 643561006700 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 643561006701 Ferredoxin [Energy production and conversion]; Region: COG1146 643561006702 4Fe-4S binding domain; Region: Fer4; cl02805 643561006703 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 643561006704 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 643561006705 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 643561006706 G1 box; other site 643561006707 GTP/Mg2+ binding site [chemical binding]; other site 643561006708 G2 box; other site 643561006709 Switch I region; other site 643561006710 G3 box; other site 643561006711 Switch II region; other site 643561006712 G4 box; other site 643561006713 G5 box; other site 643561006714 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 643561006715 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 643561006716 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 643561006717 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 643561006718 Active Sites [active] 643561006719 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 643561006720 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 643561006721 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 643561006722 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 643561006723 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 643561006724 Major Facilitator Superfamily; Region: MFS_1; pfam07690 643561006725 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 643561006726 putative substrate translocation pore; other site 643561006727 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 643561006728 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 643561006729 Uncharacterized conserved protein [Function unknown]; Region: COG4121 643561006730 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 643561006731 oxidative damage protection protein; Provisional; Region: PRK05408 643561006732 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 643561006733 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 643561006734 substrate binding pocket [chemical binding]; other site 643561006735 membrane-bound complex binding site; other site 643561006736 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 643561006737 FMN reductase, SsuE family; Region: FMN_reduc_SsuE; TIGR03567 643561006738 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 643561006739 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 643561006740 substrate binding pocket [chemical binding]; other site 643561006741 membrane-bound complex binding site; other site 643561006742 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 643561006743 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 643561006744 active site 643561006745 dimer interface [polypeptide binding]; other site 643561006746 non-prolyl cis peptide bond; other site 643561006747 insertion regions; other site 643561006748 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 643561006749 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 643561006750 dimer interface [polypeptide binding]; other site 643561006751 putative metal binding site [ion binding]; other site 643561006752 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 643561006753 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561006754 putative PBP binding loops; other site 643561006755 dimer interface [polypeptide binding]; other site 643561006756 ABC-ATPase subunit interface; other site 643561006757 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 643561006758 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 643561006759 Walker A/P-loop; other site 643561006760 ATP binding site [chemical binding]; other site 643561006761 Q-loop/lid; other site 643561006762 ABC transporter signature motif; other site 643561006763 Walker B; other site 643561006764 D-loop; other site 643561006765 H-loop/switch region; other site 643561006766 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 643561006767 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 643561006768 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561006769 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 643561006770 substrate binding site [chemical binding]; other site 643561006771 dimerization interface [polypeptide binding]; other site 643561006772 Cytochrome c; Region: Cytochrom_C; cl11414 643561006773 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 643561006774 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 643561006775 nucleotide binding site [chemical binding]; other site 643561006776 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 643561006777 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 643561006778 motif 1; other site 643561006779 active site 643561006780 motif 2; other site 643561006781 motif 3; other site 643561006782 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 643561006783 DHHA1 domain; Region: DHHA1; pfam02272 643561006784 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561006785 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561006786 metal binding site [ion binding]; metal-binding site 643561006787 active site 643561006788 I-site; other site 643561006789 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 643561006790 S-adenosylmethionine binding site [chemical binding]; other site 643561006791 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 643561006792 active site 643561006793 HIGH motif; other site 643561006794 nucleotide binding site [chemical binding]; other site 643561006795 active site 643561006796 KMSKS motif; other site 643561006797 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 643561006798 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 643561006799 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561006800 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 643561006801 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 643561006802 dimerization interface [polypeptide binding]; other site 643561006803 Pirin-related protein [General function prediction only]; Region: COG1741 643561006804 Pirin; Region: Pirin; pfam02678 643561006805 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 643561006806 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 643561006807 Pirin-related protein [General function prediction only]; Region: COG1741 643561006808 Pirin; Region: Pirin; pfam02678 643561006809 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 643561006810 rhodanese superfamily protein; Provisional; Region: PRK05320 643561006811 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 643561006812 active site residue [active] 643561006813 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 643561006814 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 643561006815 P-loop; other site 643561006816 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561006817 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561006818 metal binding site [ion binding]; metal-binding site 643561006819 active site 643561006820 I-site; other site 643561006821 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 643561006822 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 643561006823 Sulfate transporter family; Region: Sulfate_transp; pfam00916 643561006824 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 643561006825 BON domain; Region: BON; pfam04972 643561006826 cystathionine beta-lyase; Provisional; Region: PRK07050 643561006827 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 643561006828 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 643561006829 catalytic residue [active] 643561006830 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 643561006831 active site 643561006832 catalytic triad [active] 643561006833 oxyanion hole [active] 643561006834 switch loop; other site 643561006835 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 643561006836 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 643561006837 Walker A/P-loop; other site 643561006838 ATP binding site [chemical binding]; other site 643561006839 Q-loop/lid; other site 643561006840 ABC transporter signature motif; other site 643561006841 Walker B; other site 643561006842 D-loop; other site 643561006843 H-loop/switch region; other site 643561006844 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 643561006845 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 643561006846 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 643561006847 NAD-dependent deacetylase; Provisional; Region: PRK00481 643561006848 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 643561006849 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 643561006850 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 643561006851 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 643561006852 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 643561006853 active site 643561006854 catalytic tetrad [active] 643561006855 Chromate transporter; Region: Chromate_transp; pfam02417 643561006856 Chromate transporter; Region: Chromate_transp; pfam02417 643561006857 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 643561006858 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 643561006859 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 643561006860 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 643561006861 active site 643561006862 multifunctional aminopeptidase A; Provisional; Region: PRK00913 643561006863 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 643561006864 interface (dimer of trimers) [polypeptide binding]; other site 643561006865 Substrate-binding/catalytic site; other site 643561006866 Zn-binding sites [ion binding]; other site 643561006867 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 643561006868 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 643561006869 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 643561006870 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 643561006871 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 643561006872 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 643561006873 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 643561006874 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 643561006875 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 643561006876 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 643561006877 catalytic residue [active] 643561006878 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 643561006879 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 643561006880 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 643561006881 catalytic residues [active] 643561006882 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 643561006883 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 643561006884 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 643561006885 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 643561006886 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 643561006887 N-terminal plug; other site 643561006888 ligand-binding site [chemical binding]; other site 643561006889 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 643561006890 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643561006891 DNA-binding site [nucleotide binding]; DNA binding site 643561006892 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 643561006893 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561006894 homodimer interface [polypeptide binding]; other site 643561006895 catalytic residue [active] 643561006896 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 643561006897 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 643561006898 dimer interface [polypeptide binding]; other site 643561006899 phosphorylation site [posttranslational modification] 643561006900 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 643561006901 ATP binding site [chemical binding]; other site 643561006902 Mg2+ binding site [ion binding]; other site 643561006903 G-X-G motif; other site 643561006904 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 643561006905 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561006906 active site 643561006907 phosphorylation site [posttranslational modification] 643561006908 intermolecular recognition site; other site 643561006909 dimerization interface [polypeptide binding]; other site 643561006910 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 643561006911 DNA binding site [nucleotide binding] 643561006912 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 643561006913 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 643561006914 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 643561006915 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 643561006916 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 643561006917 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 643561006918 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 643561006919 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 643561006920 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 643561006921 N-terminal plug; other site 643561006922 ligand-binding site [chemical binding]; other site 643561006923 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 643561006924 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 643561006925 SnoaL-like domain; Region: SnoaL_3; pfam13474 643561006926 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 643561006927 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561006928 active site 643561006929 phosphorylation site [posttranslational modification] 643561006930 intermolecular recognition site; other site 643561006931 dimerization interface [polypeptide binding]; other site 643561006932 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 643561006933 DNA binding site [nucleotide binding] 643561006934 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 643561006935 dimerization interface [polypeptide binding]; other site 643561006936 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 643561006937 dimer interface [polypeptide binding]; other site 643561006938 phosphorylation site [posttranslational modification] 643561006939 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 643561006940 ATP binding site [chemical binding]; other site 643561006941 Mg2+ binding site [ion binding]; other site 643561006942 G-X-G motif; other site 643561006943 ferrochelatase; Reviewed; Region: hemH; PRK00035 643561006944 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 643561006945 C-terminal domain interface [polypeptide binding]; other site 643561006946 active site 643561006947 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 643561006948 active site 643561006949 N-terminal domain interface [polypeptide binding]; other site 643561006950 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 643561006951 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 643561006952 active site 643561006953 motif I; other site 643561006954 motif II; other site 643561006955 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 643561006956 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 643561006957 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 643561006958 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 643561006959 homodimer interface [polypeptide binding]; other site 643561006960 substrate-cofactor binding pocket; other site 643561006961 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561006962 catalytic residue [active] 643561006963 FOG: CBS domain [General function prediction only]; Region: COG0517 643561006964 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 643561006965 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 643561006966 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 643561006967 Tetramer interface [polypeptide binding]; other site 643561006968 active site 643561006969 FMN-binding site [chemical binding]; other site 643561006970 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 643561006971 ATP cone domain; Region: ATP-cone; pfam03477 643561006972 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 643561006973 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 643561006974 dimer interface [polypeptide binding]; other site 643561006975 active site 643561006976 glycine-pyridoxal phosphate binding site [chemical binding]; other site 643561006977 folate binding site [chemical binding]; other site 643561006978 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 643561006979 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 643561006980 N-acetyl-D-glucosamine binding site [chemical binding]; other site 643561006981 catalytic residue [active] 643561006982 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 643561006983 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 643561006984 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 643561006985 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 643561006986 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 643561006987 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 643561006988 ribonuclease R; Region: RNase_R; TIGR02063 643561006989 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 643561006990 RNB domain; Region: RNB; pfam00773 643561006991 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 643561006992 RNA binding site [nucleotide binding]; other site 643561006993 classical (c) SDRs; Region: SDR_c; cd05233 643561006994 NAD(P) binding site [chemical binding]; other site 643561006995 active site 643561006996 glycogen synthase; Provisional; Region: glgA; PRK00654 643561006997 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 643561006998 ADP-binding pocket [chemical binding]; other site 643561006999 homodimer interface [polypeptide binding]; other site 643561007000 putative bifunctional 4-alpha-glucanotransferase/malto-oligosyltrehalose synthase; Provisional; Region: PRK14507 643561007001 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 643561007002 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 643561007003 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 643561007004 active site 643561007005 catalytic site [active] 643561007006 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 643561007007 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 643561007008 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 643561007009 catalytic site [active] 643561007010 active site 643561007011 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 643561007012 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 643561007013 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 643561007014 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 643561007015 active site 643561007016 catalytic site [active] 643561007017 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 643561007018 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 643561007019 ligand binding site; other site 643561007020 oligomer interface; other site 643561007021 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 643561007022 dimer interface [polypeptide binding]; other site 643561007023 N-terminal domain interface [polypeptide binding]; other site 643561007024 sulfate 1 binding site; other site 643561007025 Response regulator receiver domain; Region: Response_reg; pfam00072 643561007026 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561007027 active site 643561007028 phosphorylation site [posttranslational modification] 643561007029 intermolecular recognition site; other site 643561007030 dimerization interface [polypeptide binding]; other site 643561007031 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 643561007032 GAF domain; Region: GAF; pfam01590 643561007033 Phytochrome region; Region: PHY; pfam00360 643561007034 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 643561007035 dimer interface [polypeptide binding]; other site 643561007036 phosphorylation site [posttranslational modification] 643561007037 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 643561007038 ATP binding site [chemical binding]; other site 643561007039 Mg2+ binding site [ion binding]; other site 643561007040 G-X-G motif; other site 643561007041 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 643561007042 heme binding pocket [chemical binding]; other site 643561007043 PAS domain; Region: PAS_9; pfam13426 643561007044 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643561007045 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 643561007046 dimer interface [polypeptide binding]; other site 643561007047 phosphorylation site [posttranslational modification] 643561007048 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 643561007049 ATP binding site [chemical binding]; other site 643561007050 Mg2+ binding site [ion binding]; other site 643561007051 G-X-G motif; other site 643561007052 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 643561007053 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561007054 active site 643561007055 phosphorylation site [posttranslational modification] 643561007056 intermolecular recognition site; other site 643561007057 dimerization interface [polypeptide binding]; other site 643561007058 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 643561007059 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561007060 active site 643561007061 phosphorylation site [posttranslational modification] 643561007062 intermolecular recognition site; other site 643561007063 dimerization interface [polypeptide binding]; other site 643561007064 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 643561007065 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 643561007066 putative active site [active] 643561007067 heme pocket [chemical binding]; other site 643561007068 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 643561007069 dimer interface [polypeptide binding]; other site 643561007070 phosphorylation site [posttranslational modification] 643561007071 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 643561007072 ATP binding site [chemical binding]; other site 643561007073 Mg2+ binding site [ion binding]; other site 643561007074 G-X-G motif; other site 643561007075 Response regulator receiver domain; Region: Response_reg; pfam00072 643561007076 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561007077 active site 643561007078 phosphorylation site [posttranslational modification] 643561007079 intermolecular recognition site; other site 643561007080 dimerization interface [polypeptide binding]; other site 643561007081 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 643561007082 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 643561007083 dimer interface [polypeptide binding]; other site 643561007084 phosphorylation site [posttranslational modification] 643561007085 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 643561007086 ATP binding site [chemical binding]; other site 643561007087 Mg2+ binding site [ion binding]; other site 643561007088 G-X-G motif; other site 643561007089 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 643561007090 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 643561007091 ATP binding site [chemical binding]; other site 643561007092 Mg2+ binding site [ion binding]; other site 643561007093 G-X-G motif; other site 643561007094 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 643561007095 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 643561007096 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 643561007097 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 643561007098 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 643561007099 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 643561007100 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 643561007101 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 643561007102 substrate binding pocket [chemical binding]; other site 643561007103 membrane-bound complex binding site; other site 643561007104 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 643561007105 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561007106 dimer interface [polypeptide binding]; other site 643561007107 conserved gate region; other site 643561007108 putative PBP binding loops; other site 643561007109 ABC-ATPase subunit interface; other site 643561007110 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 643561007111 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 643561007112 Walker A/P-loop; other site 643561007113 ATP binding site [chemical binding]; other site 643561007114 Q-loop/lid; other site 643561007115 ABC transporter signature motif; other site 643561007116 Walker B; other site 643561007117 D-loop; other site 643561007118 H-loop/switch region; other site 643561007119 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 643561007120 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643561007121 DNA-binding site [nucleotide binding]; DNA binding site 643561007122 UTRA domain; Region: UTRA; pfam07702 643561007123 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 643561007124 active sites [active] 643561007125 tetramer interface [polypeptide binding]; other site 643561007126 urocanate hydratase; Provisional; Region: PRK05414 643561007127 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 643561007128 HutD; Region: HutD; pfam05962 643561007129 imidazolonepropionase; Validated; Region: PRK09356 643561007130 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 643561007131 active site 643561007132 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 643561007133 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 643561007134 active site 643561007135 N-formylglutamate amidohydrolase; Region: FGase; cl01522 643561007136 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 643561007137 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 643561007138 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 643561007139 active site 643561007140 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 643561007141 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 643561007142 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 643561007143 rRNA binding site [nucleotide binding]; other site 643561007144 predicted 30S ribosome binding site; other site 643561007145 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 643561007146 active site 643561007147 catalytic triad [active] 643561007148 oxyanion hole [active] 643561007149 Protein of unknown function (DUF1624); Region: DUF1624; pfam07786 643561007150 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 643561007151 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 643561007152 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 643561007153 intracellular septation protein A; Reviewed; Region: PRK00259 643561007154 methionine sulfoxide reductase B; Provisional; Region: PRK00222 643561007155 SelR domain; Region: SelR; pfam01641 643561007156 Uncharacterized conserved protein [Function unknown]; Region: COG0397 643561007157 hypothetical protein; Validated; Region: PRK00029 643561007158 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 643561007159 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 643561007160 dimer interface [polypeptide binding]; other site 643561007161 acyl-activating enzyme (AAE) consensus motif; other site 643561007162 putative active site [active] 643561007163 AMP binding site [chemical binding]; other site 643561007164 putative CoA binding site [chemical binding]; other site 643561007165 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 643561007166 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 643561007167 putative ligand binding site [chemical binding]; other site 643561007168 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 643561007169 TM-ABC transporter signature motif; other site 643561007170 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 643561007171 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 643561007172 TM-ABC transporter signature motif; other site 643561007173 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 643561007174 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 643561007175 Walker A/P-loop; other site 643561007176 ATP binding site [chemical binding]; other site 643561007177 Q-loop/lid; other site 643561007178 ABC transporter signature motif; other site 643561007179 Walker B; other site 643561007180 D-loop; other site 643561007181 H-loop/switch region; other site 643561007182 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 643561007183 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 643561007184 Walker A/P-loop; other site 643561007185 ATP binding site [chemical binding]; other site 643561007186 Q-loop/lid; other site 643561007187 ABC transporter signature motif; other site 643561007188 Walker B; other site 643561007189 D-loop; other site 643561007190 H-loop/switch region; other site 643561007191 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 643561007192 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 643561007193 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 643561007194 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561007195 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561007196 metal binding site [ion binding]; metal-binding site 643561007197 active site 643561007198 I-site; other site 643561007199 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 643561007200 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561007201 metal binding site [ion binding]; metal-binding site 643561007202 active site 643561007203 I-site; other site 643561007204 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 643561007205 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 643561007206 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 643561007207 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 643561007208 substrate binding site [chemical binding]; other site 643561007209 oxyanion hole (OAH) forming residues; other site 643561007210 trimer interface [polypeptide binding]; other site 643561007211 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 643561007212 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 643561007213 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 643561007214 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 643561007215 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 643561007216 dimer interface [polypeptide binding]; other site 643561007217 active site 643561007218 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 643561007219 CoenzymeA binding site [chemical binding]; other site 643561007220 subunit interaction site [polypeptide binding]; other site 643561007221 PHB binding site; other site 643561007222 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 643561007223 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 643561007224 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 643561007225 active site 643561007226 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 643561007227 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 643561007228 classical (c) SDRs; Region: SDR_c; cd05233 643561007229 NAD(P) binding site [chemical binding]; other site 643561007230 active site 643561007231 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 643561007232 CoenzymeA binding site [chemical binding]; other site 643561007233 subunit interaction site [polypeptide binding]; other site 643561007234 PHB binding site; other site 643561007235 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 643561007236 Prostaglandin dehydrogenases; Region: PGDH; cd05288 643561007237 NAD(P) binding site [chemical binding]; other site 643561007238 substrate binding site [chemical binding]; other site 643561007239 dimer interface [polypeptide binding]; other site 643561007240 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 643561007241 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 643561007242 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 643561007243 C-terminal domain interface [polypeptide binding]; other site 643561007244 GSH binding site (G-site) [chemical binding]; other site 643561007245 dimer interface [polypeptide binding]; other site 643561007246 Glutathione S-transferase, C-terminal domain; Region: GST_C_2; pfam13410 643561007247 N-terminal domain interface [polypeptide binding]; other site 643561007248 hypothetical protein; Provisional; Region: PRK06194 643561007249 classical (c) SDRs; Region: SDR_c; cd05233 643561007250 NAD(P) binding site [chemical binding]; other site 643561007251 active site 643561007252 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 643561007253 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 643561007254 NAD binding site [chemical binding]; other site 643561007255 homodimer interface [polypeptide binding]; other site 643561007256 homotetramer interface [polypeptide binding]; other site 643561007257 active site 643561007258 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 643561007259 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 643561007260 SWIB/MDM2 domain; Region: SWIB; pfam02201 643561007261 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 643561007262 EamA-like transporter family; Region: EamA; pfam00892 643561007263 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 643561007264 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 643561007265 putative DNA binding site [nucleotide binding]; other site 643561007266 putative Zn2+ binding site [ion binding]; other site 643561007267 AsnC family; Region: AsnC_trans_reg; pfam01037 643561007268 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 643561007269 EamA-like transporter family; Region: EamA; pfam00892 643561007270 EamA-like transporter family; Region: EamA; pfam00892 643561007271 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 643561007272 putative active site pocket [active] 643561007273 dimerization interface [polypeptide binding]; other site 643561007274 putative catalytic residue [active] 643561007275 isocitrate lyase; Provisional; Region: PRK15063 643561007276 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 643561007277 tetramer interface [polypeptide binding]; other site 643561007278 active site 643561007279 Mg2+/Mn2+ binding site [ion binding]; other site 643561007280 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 643561007281 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 643561007282 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 643561007283 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 643561007284 active site 643561007285 dimer interface [polypeptide binding]; other site 643561007286 motif 1; other site 643561007287 motif 2; other site 643561007288 motif 3; other site 643561007289 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 643561007290 anticodon binding site; other site 643561007291 translation initiation factor IF-3; Region: infC; TIGR00168 643561007292 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 643561007293 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 643561007294 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 643561007295 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 643561007296 23S rRNA binding site [nucleotide binding]; other site 643561007297 L21 binding site [polypeptide binding]; other site 643561007298 L13 binding site [polypeptide binding]; other site 643561007299 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 643561007300 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 643561007301 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 643561007302 dimer interface [polypeptide binding]; other site 643561007303 motif 1; other site 643561007304 active site 643561007305 motif 2; other site 643561007306 motif 3; other site 643561007307 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 643561007308 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 643561007309 putative tRNA-binding site [nucleotide binding]; other site 643561007310 B3/4 domain; Region: B3_4; pfam03483 643561007311 tRNA synthetase B5 domain; Region: B5; smart00874 643561007312 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 643561007313 dimer interface [polypeptide binding]; other site 643561007314 motif 1; other site 643561007315 motif 3; other site 643561007316 motif 2; other site 643561007317 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 643561007318 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 643561007319 IHF - DNA interface [nucleotide binding]; other site 643561007320 IHF dimer interface [polypeptide binding]; other site 643561007321 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 643561007322 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 643561007323 DNA binding residues [nucleotide binding] 643561007324 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 643561007325 maltose O-acetyltransferase; Provisional; Region: PRK10092 643561007326 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 643561007327 active site 643561007328 substrate binding site [chemical binding]; other site 643561007329 trimer interface [polypeptide binding]; other site 643561007330 CoA binding site [chemical binding]; other site 643561007331 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 643561007332 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 643561007333 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 643561007334 Walker A/P-loop; other site 643561007335 ATP binding site [chemical binding]; other site 643561007336 Q-loop/lid; other site 643561007337 ABC transporter signature motif; other site 643561007338 Walker B; other site 643561007339 D-loop; other site 643561007340 H-loop/switch region; other site 643561007341 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 643561007342 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 643561007343 transmembrane helices; other site 643561007344 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 643561007345 PAS domain S-box; Region: sensory_box; TIGR00229 643561007346 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 643561007347 putative active site [active] 643561007348 heme pocket [chemical binding]; other site 643561007349 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561007350 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561007351 metal binding site [ion binding]; metal-binding site 643561007352 active site 643561007353 I-site; other site 643561007354 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 643561007355 hypothetical protein; Provisional; Region: PRK02237 643561007356 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 643561007357 nucleophilic elbow; other site 643561007358 catalytic triad; other site 643561007359 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 643561007360 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 643561007361 Walker A/P-loop; other site 643561007362 ATP binding site [chemical binding]; other site 643561007363 Q-loop/lid; other site 643561007364 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 643561007365 Q-loop/lid; other site 643561007366 ABC transporter signature motif; other site 643561007367 Walker B; other site 643561007368 D-loop; other site 643561007369 H-loop/switch region; other site 643561007370 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 643561007371 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 643561007372 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 643561007373 nucleotide binding pocket [chemical binding]; other site 643561007374 K-X-D-G motif; other site 643561007375 catalytic site [active] 643561007376 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 643561007377 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 643561007378 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 643561007379 Dimer interface [polypeptide binding]; other site 643561007380 BRCT sequence motif; other site 643561007381 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 643561007382 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 643561007383 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 643561007384 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 643561007385 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 643561007386 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 643561007387 PAAR motif; Region: PAAR_motif; pfam05488 643561007388 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 643561007389 RHS Repeat; Region: RHS_repeat; pfam05593 643561007390 RHS Repeat; Region: RHS_repeat; pfam05593 643561007391 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 643561007392 RHS Repeat; Region: RHS_repeat; pfam05593 643561007393 RHS Repeat; Region: RHS_repeat; pfam05593 643561007394 RHS protein; Region: RHS; pfam03527 643561007395 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 643561007396 Transposase domain (DUF772); Region: DUF772; pfam05598 643561007397 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 643561007398 DDE superfamily endonuclease; Region: DDE_4; cl17710 643561007399 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 643561007400 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 643561007401 substrate binding pocket [chemical binding]; other site 643561007402 membrane-bound complex binding site; other site 643561007403 hinge residues; other site 643561007404 EVE domain; Region: EVE; cl00728 643561007405 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 643561007406 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 643561007407 ATP binding site [chemical binding]; other site 643561007408 putative Mg++ binding site [ion binding]; other site 643561007409 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 643561007410 nucleotide binding region [chemical binding]; other site 643561007411 ATP-binding site [chemical binding]; other site 643561007412 Transglycosylase associated protein; Region: Transgly_assoc; pfam04226 643561007413 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 643561007414 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 643561007415 NlpC/P60 family; Region: NLPC_P60; pfam00877 643561007416 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 643561007417 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 643561007418 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 643561007419 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 643561007420 Isochorismatase family; Region: Isochorismatase; pfam00857 643561007421 catalytic triad [active] 643561007422 dimer interface [polypeptide binding]; other site 643561007423 conserved cis-peptide bond; other site 643561007424 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 643561007425 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 643561007426 acyl-activating enzyme (AAE) consensus motif; other site 643561007427 AMP binding site [chemical binding]; other site 643561007428 active site 643561007429 CoA binding site [chemical binding]; other site 643561007430 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 643561007431 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 643561007432 acyl-activating enzyme (AAE) consensus motif; other site 643561007433 putative AMP binding site [chemical binding]; other site 643561007434 putative active site [active] 643561007435 putative CoA binding site [chemical binding]; other site 643561007436 SnoaL-like domain; Region: SnoaL_2; pfam12680 643561007437 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 643561007438 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 643561007439 active site 643561007440 FMN binding site [chemical binding]; other site 643561007441 2,4-decadienoyl-CoA binding site; other site 643561007442 catalytic residue [active] 643561007443 4Fe-4S cluster binding site [ion binding]; other site 643561007444 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 643561007445 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 643561007446 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643561007447 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643561007448 WHG domain; Region: WHG; pfam13305 643561007449 PAS fold; Region: PAS_3; pfam08447 643561007450 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 643561007451 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 643561007452 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 643561007453 putative active site [active] 643561007454 heme pocket [chemical binding]; other site 643561007455 PAS domain S-box; Region: sensory_box; TIGR00229 643561007456 PAS domain; Region: PAS; smart00091 643561007457 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561007458 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561007459 metal binding site [ion binding]; metal-binding site 643561007460 active site 643561007461 I-site; other site 643561007462 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 643561007463 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 643561007464 EamA-like transporter family; Region: EamA; pfam00892 643561007465 EamA-like transporter family; Region: EamA; pfam00892 643561007466 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 643561007467 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 643561007468 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 643561007469 DNA binding site [nucleotide binding] 643561007470 active site 643561007471 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 643561007472 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643561007473 Helix-turn-helix domain; Region: HTH_18; pfam12833 643561007474 AlkA N-terminal domain; Region: AlkA_N; pfam06029 643561007475 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 643561007476 minor groove reading motif; other site 643561007477 helix-hairpin-helix signature motif; other site 643561007478 active site 643561007479 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 643561007480 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 643561007481 active site 643561007482 substrate binding site [chemical binding]; other site 643561007483 metal binding site [ion binding]; metal-binding site 643561007484 Predicted amidohydrolase [General function prediction only]; Region: COG0388 643561007485 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 643561007486 active site 643561007487 catalytic triad [active] 643561007488 dimer interface [polypeptide binding]; other site 643561007489 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 643561007490 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 643561007491 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 643561007492 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 643561007493 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 643561007494 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 643561007495 acyl-activating enzyme (AAE) consensus motif; other site 643561007496 AMP binding site [chemical binding]; other site 643561007497 active site 643561007498 CoA binding site [chemical binding]; other site 643561007499 Haem-containing dehydratase; Region: Dehydratase_hem; pfam13816 643561007500 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 643561007501 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 643561007502 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 643561007503 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 643561007504 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 643561007505 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 643561007506 Ribosomally synthesized peptide prototyped by Frankia Franean1_4349; Region: Frankia_peptide; pfam14407 643561007507 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 643561007508 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 643561007509 Amidase; Region: Amidase; pfam01425 643561007510 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 643561007511 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643561007512 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 643561007513 CoA binding domain; Region: CoA_binding_2; pfam13380 643561007514 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 643561007515 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 643561007516 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 643561007517 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 643561007518 Coenzyme A binding pocket [chemical binding]; other site 643561007519 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 643561007520 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 643561007521 active site 643561007522 ATP binding site [chemical binding]; other site 643561007523 substrate binding site [chemical binding]; other site 643561007524 activation loop (A-loop); other site 643561007525 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 643561007526 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 643561007527 active site residue [active] 643561007528 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 643561007529 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 643561007530 S-adenosylmethionine binding site [chemical binding]; other site 643561007531 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643561007532 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643561007533 methionine sulfoxide reductase A; Provisional; Region: PRK14054 643561007534 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 643561007535 putative DNA binding helix; other site 643561007536 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 643561007537 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643561007538 Walker A/P-loop; other site 643561007539 ATP binding site [chemical binding]; other site 643561007540 Q-loop/lid; other site 643561007541 ABC transporter signature motif; other site 643561007542 Walker B; other site 643561007543 D-loop; other site 643561007544 H-loop/switch region; other site 643561007545 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 643561007546 FtsX-like permease family; Region: FtsX; pfam02687 643561007547 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 643561007548 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 643561007549 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 643561007550 N-terminal plug; other site 643561007551 ligand-binding site [chemical binding]; other site 643561007552 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 643561007553 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 643561007554 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 643561007555 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 643561007556 hydroxyglutarate oxidase; Provisional; Region: PRK11728 643561007557 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 643561007558 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 643561007559 NAD binding site [chemical binding]; other site 643561007560 catalytic residues [active] 643561007561 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 643561007562 C-terminal peptidase (prc); Region: prc; TIGR00225 643561007563 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 643561007564 protein binding site [polypeptide binding]; other site 643561007565 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 643561007566 Catalytic dyad [active] 643561007567 Predicted permeases [General function prediction only]; Region: COG0679 643561007568 hypothetical protein; Provisional; Region: PRK08201 643561007569 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_1; cd05678 643561007570 putative metal binding site [ion binding]; other site 643561007571 putative dimer interface [polypeptide binding]; other site 643561007572 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 643561007573 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 643561007574 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 643561007575 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 643561007576 putative active site pocket [active] 643561007577 dimerization interface [polypeptide binding]; other site 643561007578 putative catalytic residue [active] 643561007579 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 643561007580 ligand binding site [chemical binding]; other site 643561007581 Predicted small integral membrane protein (DUF2165); Region: DUF2165; pfam09933 643561007582 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 643561007583 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 643561007584 Transcriptional regulators [Transcription]; Region: PurR; COG1609 643561007585 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 643561007586 DNA binding site [nucleotide binding] 643561007587 domain linker motif; other site 643561007588 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 643561007589 putative ligand binding site [chemical binding]; other site 643561007590 putative dimerization interface [polypeptide binding]; other site 643561007591 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 643561007592 ATP-binding site [chemical binding]; other site 643561007593 Gluconate-6-phosphate binding site [chemical binding]; other site 643561007594 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 643561007595 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 643561007596 DctM-like transporters; Region: DctM; pfam06808 643561007597 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 643561007598 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 643561007599 phosphogluconate dehydratase; Validated; Region: PRK09054 643561007600 6-phosphogluconate dehydratase; Region: edd; TIGR01196 643561007601 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 643561007602 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 643561007603 active site 643561007604 intersubunit interface [polypeptide binding]; other site 643561007605 catalytic residue [active] 643561007606 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 643561007607 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 643561007608 dimer interface [polypeptide binding]; other site 643561007609 active site 643561007610 metal binding site [ion binding]; metal-binding site 643561007611 glutathione binding site [chemical binding]; other site 643561007612 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 643561007613 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643561007614 NAD(P) binding site [chemical binding]; other site 643561007615 active site 643561007616 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 643561007617 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 643561007618 non-specific DNA binding site [nucleotide binding]; other site 643561007619 salt bridge; other site 643561007620 sequence-specific DNA binding site [nucleotide binding]; other site 643561007621 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 643561007622 Domain of unknown function (DUF955); Region: DUF955; pfam06114 643561007623 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 643561007624 methylcitrate synthase; Provisional; Region: PRK12351 643561007625 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 643561007626 oxalacetate binding site [chemical binding]; other site 643561007627 citrylCoA binding site [chemical binding]; other site 643561007628 coenzyme A binding site [chemical binding]; other site 643561007629 catalytic triad [active] 643561007630 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 643561007631 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 643561007632 substrate binding site [chemical binding]; other site 643561007633 ligand binding site [chemical binding]; other site 643561007634 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 643561007635 substrate binding site [chemical binding]; other site 643561007636 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 643561007637 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 643561007638 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 643561007639 tetramer interface [polypeptide binding]; other site 643561007640 active site 643561007641 Mg2+/Mn2+ binding site [ion binding]; other site 643561007642 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 643561007643 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561007644 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 643561007645 putative dimerization interface [polypeptide binding]; other site 643561007646 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 643561007647 methionine synthase; Provisional; Region: PRK01207 643561007648 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 643561007649 substrate binding site [chemical binding]; other site 643561007650 THF binding site; other site 643561007651 zinc-binding site [ion binding]; other site 643561007652 HD domain; Region: HD_3; cl17350 643561007653 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 643561007654 active site 643561007655 DNA binding site [nucleotide binding] 643561007656 Int/Topo IB signature motif; other site 643561007657 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 643561007658 Predicted transcriptional regulator [Transcription]; Region: COG2944 643561007659 Peptidase S8 family domain, uncharacterized subfamily 12; Region: Peptidases_S8_12; cd07480 643561007660 active site 643561007661 catalytic triad [active] 643561007662 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 643561007663 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 643561007664 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 643561007665 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 643561007666 eyelet of channel; other site 643561007667 trimer interface [polypeptide binding]; other site 643561007668 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 643561007669 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 643561007670 catalytic site [active] 643561007671 nitrilase; Region: PLN02798 643561007672 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 643561007673 putative active site [active] 643561007674 catalytic triad [active] 643561007675 dimer interface [polypeptide binding]; other site 643561007676 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 643561007677 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561007678 dimer interface [polypeptide binding]; other site 643561007679 conserved gate region; other site 643561007680 ABC-ATPase subunit interface; other site 643561007681 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 643561007682 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561007683 putative PBP binding loops; other site 643561007684 dimer interface [polypeptide binding]; other site 643561007685 ABC-ATPase subunit interface; other site 643561007686 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 643561007687 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 643561007688 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 643561007689 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 643561007690 Walker A/P-loop; other site 643561007691 ATP binding site [chemical binding]; other site 643561007692 Q-loop/lid; other site 643561007693 ABC transporter signature motif; other site 643561007694 Walker B; other site 643561007695 D-loop; other site 643561007696 H-loop/switch region; other site 643561007697 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 643561007698 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 643561007699 Walker A/P-loop; other site 643561007700 ATP binding site [chemical binding]; other site 643561007701 Q-loop/lid; other site 643561007702 ABC transporter signature motif; other site 643561007703 Walker B; other site 643561007704 D-loop; other site 643561007705 H-loop/switch region; other site 643561007706 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 643561007707 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 643561007708 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 643561007709 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 643561007710 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 643561007711 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 643561007712 Autoinducer binding domain; Region: Autoind_bind; pfam03472 643561007713 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 643561007714 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 643561007715 DNA binding residues [nucleotide binding] 643561007716 dimerization interface [polypeptide binding]; other site 643561007717 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 643561007718 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561007719 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561007720 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 643561007721 putative dimerization interface [polypeptide binding]; other site 643561007722 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 643561007723 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561007724 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 643561007725 CoA-transferase family III; Region: CoA_transf_3; pfam02515 643561007726 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 643561007727 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 643561007728 active site 643561007729 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561007730 hypothetical protein; Provisional; Region: PRK09936 643561007731 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 643561007732 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 643561007733 active site 643561007734 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 643561007735 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 643561007736 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 643561007737 acyl-activating enzyme (AAE) consensus motif; other site 643561007738 AMP binding site [chemical binding]; other site 643561007739 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 643561007740 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 643561007741 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 643561007742 binding surface 643561007743 TPR motif; other site 643561007744 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 643561007745 TPR motif; other site 643561007746 binding surface 643561007747 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 643561007748 bacteriophage N4 adsorption protein B; Provisional; Region: PRK14716 643561007749 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 643561007750 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 643561007751 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 643561007752 active site 643561007753 homodimer interface [polypeptide binding]; other site 643561007754 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 643561007755 intersubunit interface [polypeptide binding]; other site 643561007756 active site 643561007757 Zn2+ binding site [ion binding]; other site 643561007758 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 643561007759 EamA-like transporter family; Region: EamA; cl17759 643561007760 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 643561007761 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 643561007762 probable active site [active] 643561007763 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 643561007764 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 643561007765 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 643561007766 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 643561007767 putative active site [active] 643561007768 putative PHP Thumb interface [polypeptide binding]; other site 643561007769 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 643561007770 generic binding surface II; other site 643561007771 generic binding surface I; other site 643561007772 Y-family of DNA polymerases; Region: PolY; cl12025 643561007773 Uncharacterized conserved protein [Function unknown]; Region: COG4544 643561007774 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643561007775 Zn2+ binding site [ion binding]; other site 643561007776 Mg2+ binding site [ion binding]; other site 643561007777 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 643561007778 dimer interface [polypeptide binding]; other site 643561007779 substrate binding site [chemical binding]; other site 643561007780 metal binding sites [ion binding]; metal-binding site 643561007781 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643561007782 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 643561007783 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643561007784 D-aminoacyl-tRNA deacylase; Region: tRNA_deacylase; cl00716 643561007785 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 643561007786 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_3; cd08653 643561007787 putative active site [active] 643561007788 putative cosubstrate binding site; other site 643561007789 putative substrate binding site [chemical binding]; other site 643561007790 catalytic site [active] 643561007791 argininosuccinate lyase; Provisional; Region: PRK02186 643561007792 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 643561007793 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 643561007794 tetramer interface [polypeptide binding]; other site 643561007795 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 643561007796 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 643561007797 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 643561007798 catalytic residue [active] 643561007799 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 643561007800 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 643561007801 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 643561007802 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 643561007803 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 643561007804 M20 Peptidases, Poly(aspartic acid) hydrolase-like proteins; Region: M20_PAAh_like; cd03896 643561007805 putative metal binding site [ion binding]; other site 643561007806 Predicted membrane protein [Function unknown]; Region: COG4539 643561007807 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 643561007808 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 643561007809 ligand binding site [chemical binding]; other site 643561007810 flexible hinge region; other site 643561007811 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 643561007812 non-specific DNA interactions [nucleotide binding]; other site 643561007813 DNA binding site [nucleotide binding] 643561007814 sequence specific DNA binding site [nucleotide binding]; other site 643561007815 putative cAMP binding site [chemical binding]; other site 643561007816 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 643561007817 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 643561007818 NAD(P) binding site [chemical binding]; other site 643561007819 catalytic residues [active] 643561007820 catalytic residues [active] 643561007821 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 643561007822 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 643561007823 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 643561007824 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 643561007825 GntP family permease; Region: GntP_permease; pfam02447 643561007826 fructuronate transporter; Provisional; Region: PRK10034; cl15264 643561007827 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 643561007828 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643561007829 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 643561007830 NAD(P) binding site [chemical binding]; other site 643561007831 active site 643561007832 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 643561007833 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 643561007834 FeS/SAM binding site; other site 643561007835 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 643561007836 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 643561007837 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 643561007838 GTP binding site; other site 643561007839 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 643561007840 Coenzyme A binding pocket [chemical binding]; other site 643561007841 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 643561007842 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 643561007843 dimer interface [polypeptide binding]; other site 643561007844 putative functional site; other site 643561007845 putative MPT binding site; other site 643561007846 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 643561007847 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 643561007848 catalytic residues [active] 643561007849 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 643561007850 RNA/DNA hybrid binding site [nucleotide binding]; other site 643561007851 active site 643561007852 Methyltransferase domain; Region: Methyltransf_11; pfam08241 643561007853 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 643561007854 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 643561007855 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 643561007856 N-acetyl-D-glucosamine binding site [chemical binding]; other site 643561007857 catalytic residue [active] 643561007858 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 643561007859 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 643561007860 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 643561007861 MAPEG family; Region: MAPEG; cl09190 643561007862 recombination protein RecR; Reviewed; Region: recR; PRK00076 643561007863 RecR protein; Region: RecR; pfam02132 643561007864 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 643561007865 putative active site [active] 643561007866 putative metal-binding site [ion binding]; other site 643561007867 tetramer interface [polypeptide binding]; other site 643561007868 hypothetical protein; Validated; Region: PRK00153 643561007869 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14951 643561007870 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 643561007871 Walker A motif; other site 643561007872 ATP binding site [chemical binding]; other site 643561007873 Walker B motif; other site 643561007874 arginine finger; other site 643561007875 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 643561007876 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 643561007877 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561007878 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561007879 dimer interface [polypeptide binding]; other site 643561007880 putative CheW interface [polypeptide binding]; other site 643561007881 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 643561007882 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 643561007883 Part of AAA domain; Region: AAA_19; pfam13245 643561007884 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 643561007885 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 643561007886 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 643561007887 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 643561007888 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 643561007889 catalytic residues [active] 643561007890 transcription termination factor Rho; Provisional; Region: rho; PRK09376 643561007891 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 643561007892 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 643561007893 RNA binding site [nucleotide binding]; other site 643561007894 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 643561007895 multimer interface [polypeptide binding]; other site 643561007896 Walker A motif; other site 643561007897 ATP binding site [chemical binding]; other site 643561007898 Walker B motif; other site 643561007899 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643561007900 Walker A/P-loop; other site 643561007901 ATP binding site [chemical binding]; other site 643561007902 Q-loop/lid; other site 643561007903 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643561007904 ABC transporter signature motif; other site 643561007905 Walker B; other site 643561007906 D-loop; other site 643561007907 H-loop/switch region; other site 643561007908 exonuclease subunit SbcD; Provisional; Region: PRK10966 643561007909 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 643561007910 active site 643561007911 metal binding site [ion binding]; metal-binding site 643561007912 DNA binding site [nucleotide binding] 643561007913 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 643561007914 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 643561007915 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 643561007916 multidrug efflux protein; Reviewed; Region: PRK01766 643561007917 cation binding site [ion binding]; other site 643561007918 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 643561007919 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 643561007920 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 643561007921 putative active site [active] 643561007922 heme pocket [chemical binding]; other site 643561007923 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 643561007924 dimer interface [polypeptide binding]; other site 643561007925 phosphorylation site [posttranslational modification] 643561007926 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 643561007927 ATP binding site [chemical binding]; other site 643561007928 Mg2+ binding site [ion binding]; other site 643561007929 G-X-G motif; other site 643561007930 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 643561007931 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561007932 active site 643561007933 phosphorylation site [posttranslational modification] 643561007934 intermolecular recognition site; other site 643561007935 dimerization interface [polypeptide binding]; other site 643561007936 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 643561007937 DNA binding site [nucleotide binding] 643561007938 transcriptional regulator PhoU; Provisional; Region: PRK11115 643561007939 PhoU domain; Region: PhoU; pfam01895 643561007940 PhoU domain; Region: PhoU; pfam01895 643561007941 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 643561007942 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 643561007943 Walker A/P-loop; other site 643561007944 ATP binding site [chemical binding]; other site 643561007945 Q-loop/lid; other site 643561007946 ABC transporter signature motif; other site 643561007947 Walker B; other site 643561007948 D-loop; other site 643561007949 H-loop/switch region; other site 643561007950 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 643561007951 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561007952 dimer interface [polypeptide binding]; other site 643561007953 conserved gate region; other site 643561007954 putative PBP binding loops; other site 643561007955 ABC-ATPase subunit interface; other site 643561007956 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 643561007957 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561007958 dimer interface [polypeptide binding]; other site 643561007959 conserved gate region; other site 643561007960 putative PBP binding loops; other site 643561007961 ABC-ATPase subunit interface; other site 643561007962 PBP superfamily domain; Region: PBP_like_2; cl17296 643561007963 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 643561007964 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 643561007965 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 643561007966 catalytic core [active] 643561007967 polyphosphate kinase; Provisional; Region: PRK05443 643561007968 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 643561007969 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 643561007970 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 643561007971 putative active site [active] 643561007972 catalytic site [active] 643561007973 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 643561007974 putative domain interface [polypeptide binding]; other site 643561007975 putative active site [active] 643561007976 catalytic site [active] 643561007977 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 643561007978 PAS domain; Region: PAS_8; pfam13188 643561007979 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 643561007980 putative active site [active] 643561007981 heme pocket [chemical binding]; other site 643561007982 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 643561007983 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 643561007984 putative active site [active] 643561007985 heme pocket [chemical binding]; other site 643561007986 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561007987 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561007988 metal binding site [ion binding]; metal-binding site 643561007989 active site 643561007990 I-site; other site 643561007991 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 643561007992 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 643561007993 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 643561007994 active site 643561007995 substrate binding site [chemical binding]; other site 643561007996 metal binding site [ion binding]; metal-binding site 643561007997 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 643561007998 dihydropteroate synthase; Region: DHPS; TIGR01496 643561007999 substrate binding pocket [chemical binding]; other site 643561008000 dimer interface [polypeptide binding]; other site 643561008001 inhibitor binding site; inhibition site 643561008002 FtsH Extracellular; Region: FtsH_ext; pfam06480 643561008003 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 643561008004 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 643561008005 Walker A motif; other site 643561008006 ATP binding site [chemical binding]; other site 643561008007 Walker B motif; other site 643561008008 arginine finger; other site 643561008009 Peptidase family M41; Region: Peptidase_M41; pfam01434 643561008010 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 643561008011 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 643561008012 S-adenosylmethionine binding site [chemical binding]; other site 643561008013 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 643561008014 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 643561008015 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 643561008016 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 643561008017 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 643561008018 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 643561008019 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 643561008020 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 643561008021 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 643561008022 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 643561008023 ATP-grasp domain; Region: ATP-grasp_4; cl17255 643561008024 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 643561008025 IMP binding site; other site 643561008026 dimer interface [polypeptide binding]; other site 643561008027 interdomain contacts; other site 643561008028 partial ornithine binding site; other site 643561008029 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 643561008030 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 643561008031 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 643561008032 catalytic site [active] 643561008033 subunit interface [polypeptide binding]; other site 643561008034 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 643561008035 EF-hand domain pair; Region: EF_hand_5; pfam13499 643561008036 Ca2+ binding site [ion binding]; other site 643561008037 EF-hand domain pair; Region: EF_hand_5; pfam13499 643561008038 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 643561008039 Ca2+ binding site [ion binding]; other site 643561008040 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 643561008041 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 643561008042 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561008043 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561008044 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 643561008045 dimerization interface [polypeptide binding]; other site 643561008046 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 643561008047 Transposase; Region: DEDD_Tnp_IS110; pfam01548 643561008048 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 643561008049 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 643561008050 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 643561008051 tetrameric interface [polypeptide binding]; other site 643561008052 NAD binding site [chemical binding]; other site 643561008053 catalytic residues [active] 643561008054 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 643561008055 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 643561008056 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 643561008057 active site 643561008058 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 643561008059 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 643561008060 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 643561008061 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 643561008062 E-class dimer interface [polypeptide binding]; other site 643561008063 P-class dimer interface [polypeptide binding]; other site 643561008064 active site 643561008065 Cu2+ binding site [ion binding]; other site 643561008066 Zn2+ binding site [ion binding]; other site 643561008067 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 643561008068 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 643561008069 N-terminal plug; other site 643561008070 ligand-binding site [chemical binding]; other site 643561008071 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561008072 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 643561008073 Strictosidine synthase; Region: Str_synth; pfam03088 643561008074 galactarate dehydratase; Region: galactar-dH20; TIGR03248 643561008075 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 643561008076 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 643561008077 DctM-like transporters; Region: DctM; pfam06808 643561008078 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 643561008079 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 643561008080 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 643561008081 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 643561008082 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 643561008083 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 643561008084 extended (e) SDRs; Region: SDR_e; cd08946 643561008085 NAD(P) binding site [chemical binding]; other site 643561008086 active site 643561008087 substrate binding site [chemical binding]; other site 643561008088 Transcriptional regulators [Transcription]; Region: FadR; COG2186 643561008089 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643561008090 DNA-binding site [nucleotide binding]; DNA binding site 643561008091 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 643561008092 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561008093 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 643561008094 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 643561008095 putative active site [active] 643561008096 catalytic residue [active] 643561008097 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 643561008098 RNA polymerase sigma factor; Provisional; Region: PRK12515 643561008099 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 643561008100 DNA binding residues [nucleotide binding] 643561008101 Putative zinc-finger; Region: zf-HC2; pfam13490 643561008102 Peptidase S8 family domain, uncharacterized subfamily 8; Region: Peptidases_S8_8; cd07492 643561008103 active site 643561008104 catalytic triad [active] 643561008105 major facilitator superfamily transporter; Provisional; Region: PRK05122 643561008106 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643561008107 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643561008108 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561008109 dimer interface [polypeptide binding]; other site 643561008110 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 643561008111 putative CheW interface [polypeptide binding]; other site 643561008112 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 643561008113 metal coordination site [ion binding]; other site 643561008114 H-NS histone family; Region: Histone_HNS; pfam00816 643561008115 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 643561008116 putative metal dependent hydrolase; Provisional; Region: PRK11598 643561008117 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 643561008118 Sulfatase; Region: Sulfatase; pfam00884 643561008119 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643561008120 HAMP domain; Region: HAMP; pfam00672 643561008121 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 643561008122 dimer interface [polypeptide binding]; other site 643561008123 phosphorylation site [posttranslational modification] 643561008124 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 643561008125 ATP binding site [chemical binding]; other site 643561008126 Mg2+ binding site [ion binding]; other site 643561008127 G-X-G motif; other site 643561008128 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 643561008129 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561008130 active site 643561008131 phosphorylation site [posttranslational modification] 643561008132 intermolecular recognition site; other site 643561008133 dimerization interface [polypeptide binding]; other site 643561008134 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 643561008135 DNA binding site [nucleotide binding] 643561008136 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 643561008137 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 643561008138 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 643561008139 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 643561008140 Transcriptional regulators [Transcription]; Region: MarR; COG1846 643561008141 MarR family; Region: MarR_2; cl17246 643561008142 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 643561008143 CoenzymeA binding site [chemical binding]; other site 643561008144 subunit interaction site [polypeptide binding]; other site 643561008145 PHB binding site; other site 643561008146 isocitrate dehydrogenase; Validated; Region: PRK07362 643561008147 isocitrate dehydrogenase; Reviewed; Region: PRK07006 643561008148 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 643561008149 superoxide dismutase; Provisional; Region: PRK10543 643561008150 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 643561008151 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 643561008152 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 643561008153 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 643561008154 generic binding surface II; other site 643561008155 generic binding surface I; other site 643561008156 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 643561008157 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 643561008158 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 643561008159 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 643561008160 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 643561008161 Uncharacterized conserved protein [Function unknown]; Region: COG2835 643561008162 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 643561008163 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 643561008164 Ligand binding site; other site 643561008165 oligomer interface; other site 643561008166 adenylate kinase; Reviewed; Region: adk; PRK00279 643561008167 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 643561008168 AMP-binding site [chemical binding]; other site 643561008169 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 643561008170 Asparaginase, found in various plant, animal and bacterial cells; Region: Asparaginase; smart00870 643561008171 homodimer interface [polypeptide binding]; other site 643561008172 active site 643561008173 LexA repressor; Validated; Region: PRK00215 643561008174 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 643561008175 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 643561008176 Catalytic site [active] 643561008177 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 643561008178 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 643561008179 ATP binding site [chemical binding]; other site 643561008180 putative Mg++ binding site [ion binding]; other site 643561008181 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 643561008182 nucleotide binding region [chemical binding]; other site 643561008183 ATP-binding site [chemical binding]; other site 643561008184 Helicase associated domain (HA2); Region: HA2; pfam04408 643561008185 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 643561008186 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 643561008187 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 643561008188 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 643561008189 N-acetylglutamate synthase; Validated; Region: PRK05279 643561008190 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 643561008191 putative feedback inhibition sensing region; other site 643561008192 putative nucleotide binding site [chemical binding]; other site 643561008193 putative substrate binding site [chemical binding]; other site 643561008194 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 643561008195 Coenzyme A binding pocket [chemical binding]; other site 643561008196 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 643561008197 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 643561008198 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561008199 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 643561008200 dimerization interface [polypeptide binding]; other site 643561008201 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 643561008202 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 643561008203 active site residue [active] 643561008204 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 643561008205 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 643561008206 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 643561008207 putative N-terminal domain interface [polypeptide binding]; other site 643561008208 putative dimer interface [polypeptide binding]; other site 643561008209 putative substrate binding pocket (H-site) [chemical binding]; other site 643561008210 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 643561008211 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 643561008212 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 643561008213 Walker A/P-loop; other site 643561008214 ATP binding site [chemical binding]; other site 643561008215 Q-loop/lid; other site 643561008216 ABC transporter signature motif; other site 643561008217 Walker B; other site 643561008218 D-loop; other site 643561008219 H-loop/switch region; other site 643561008220 TOBE-like domain; Region: TOBE_3; pfam12857 643561008221 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 643561008222 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561008223 dimer interface [polypeptide binding]; other site 643561008224 conserved gate region; other site 643561008225 putative PBP binding loops; other site 643561008226 ABC-ATPase subunit interface; other site 643561008227 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 643561008228 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561008229 dimer interface [polypeptide binding]; other site 643561008230 conserved gate region; other site 643561008231 putative PBP binding loops; other site 643561008232 ABC-ATPase subunit interface; other site 643561008233 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 643561008234 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 643561008235 Serine hydrolase; Region: Ser_hydrolase; pfam06821 643561008236 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 643561008237 LysR family transcriptional regulator; Provisional; Region: PRK14997 643561008238 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561008239 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 643561008240 putative effector binding pocket; other site 643561008241 putative dimerization interface [polypeptide binding]; other site 643561008242 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 643561008243 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 643561008244 Predicted flavoprotein [General function prediction only]; Region: COG0431 643561008245 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 643561008246 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 643561008247 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 643561008248 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561008249 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561008250 dimer interface [polypeptide binding]; other site 643561008251 putative CheW interface [polypeptide binding]; other site 643561008252 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 643561008253 active site 643561008254 catalytic triad [active] 643561008255 oxyanion hole [active] 643561008256 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 643561008257 Transposase; Region: DEDD_Tnp_IS110; pfam01548 643561008258 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 643561008259 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643561008260 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 643561008261 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643561008262 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561008263 dimer interface [polypeptide binding]; other site 643561008264 conserved gate region; other site 643561008265 ABC-ATPase subunit interface; other site 643561008266 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 643561008267 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 643561008268 Walker A/P-loop; other site 643561008269 ATP binding site [chemical binding]; other site 643561008270 Q-loop/lid; other site 643561008271 ABC transporter signature motif; other site 643561008272 Walker B; other site 643561008273 D-loop; other site 643561008274 H-loop/switch region; other site 643561008275 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 643561008276 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 643561008277 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 643561008278 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 643561008279 putative active site [active] 643561008280 heme pocket [chemical binding]; other site 643561008281 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 643561008282 ATP binding site [chemical binding]; other site 643561008283 Mg2+ binding site [ion binding]; other site 643561008284 G-X-G motif; other site 643561008285 Response regulator receiver domain; Region: Response_reg; pfam00072 643561008286 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561008287 active site 643561008288 phosphorylation site [posttranslational modification] 643561008289 intermolecular recognition site; other site 643561008290 dimerization interface [polypeptide binding]; other site 643561008291 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561008292 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561008293 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 643561008294 putative effector binding pocket; other site 643561008295 dimerization interface [polypeptide binding]; other site 643561008296 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 643561008297 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 643561008298 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 643561008299 HlyD family secretion protein; Region: HlyD_3; pfam13437 643561008300 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 643561008301 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561008302 active site 643561008303 phosphorylation site [posttranslational modification] 643561008304 intermolecular recognition site; other site 643561008305 dimerization interface [polypeptide binding]; other site 643561008306 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 643561008307 DNA binding site [nucleotide binding] 643561008308 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643561008309 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 643561008310 dimerization interface [polypeptide binding]; other site 643561008311 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 643561008312 dimer interface [polypeptide binding]; other site 643561008313 phosphorylation site [posttranslational modification] 643561008314 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 643561008315 ATP binding site [chemical binding]; other site 643561008316 Mg2+ binding site [ion binding]; other site 643561008317 G-X-G motif; other site 643561008318 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561008319 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561008320 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 643561008321 putative effector binding pocket; other site 643561008322 putative dimerization interface [polypeptide binding]; other site 643561008323 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 643561008324 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 643561008325 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 643561008326 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 643561008327 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 643561008328 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 643561008329 putative DNA binding site [nucleotide binding]; other site 643561008330 putative homodimer interface [polypeptide binding]; other site 643561008331 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 643561008332 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 643561008333 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 643561008334 active site 643561008335 DNA binding site [nucleotide binding] 643561008336 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 643561008337 DNA binding site [nucleotide binding] 643561008338 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 643561008339 nucleotide binding site [chemical binding]; other site 643561008340 biotin synthase; Region: bioB; TIGR00433 643561008341 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 643561008342 FeS/SAM binding site; other site 643561008343 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 643561008344 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; pfam01177 643561008345 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 643561008346 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643561008347 substrate binding pocket [chemical binding]; other site 643561008348 membrane-bound complex binding site; other site 643561008349 hinge residues; other site 643561008350 hypothetical protein; Provisional; Region: PRK07483 643561008351 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 643561008352 inhibitor-cofactor binding pocket; inhibition site 643561008353 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561008354 catalytic residue [active] 643561008355 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 643561008356 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 643561008357 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 643561008358 putative active site [active] 643561008359 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 643561008360 dimer interface [polypeptide binding]; other site 643561008361 substrate binding site [chemical binding]; other site 643561008362 metal binding site [ion binding]; metal-binding site 643561008363 Uncharacterized conserved protein [Function unknown]; Region: COG1434 643561008364 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 643561008365 putative active site [active] 643561008366 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 643561008367 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 643561008368 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 643561008369 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 643561008370 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 643561008371 carboxyltransferase (CT) interaction site; other site 643561008372 biotinylation site [posttranslational modification]; other site 643561008373 LabA_like proteins; Region: LabA_like; cd06167 643561008374 putative metal binding site [ion binding]; other site 643561008375 Uncharacterized conserved protein [Function unknown]; Region: COG1432 643561008376 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 643561008377 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 643561008378 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 643561008379 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 643561008380 NUC130/3NT domain; Region: NUC130_3NT; pfam08158 643561008381 membrane ATPase/protein kinase; Provisional; Region: PRK09435 643561008382 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 643561008383 Walker A; other site 643561008384 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 643561008385 Coenzyme A binding pocket [chemical binding]; other site 643561008386 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 643561008387 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 643561008388 active site 643561008389 substrate binding site [chemical binding]; other site 643561008390 coenzyme B12 binding site [chemical binding]; other site 643561008391 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 643561008392 B12 binding site [chemical binding]; other site 643561008393 cobalt ligand [ion binding]; other site 643561008394 Transcriptional regulators [Transcription]; Region: GntR; COG1802 643561008395 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643561008396 DNA-binding site [nucleotide binding]; DNA binding site 643561008397 FCD domain; Region: FCD; pfam07729 643561008398 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 643561008399 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 643561008400 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 643561008401 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 643561008402 PAS domain S-box; Region: sensory_box; TIGR00229 643561008403 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 643561008404 putative active site [active] 643561008405 heme pocket [chemical binding]; other site 643561008406 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 643561008407 PAS domain; Region: PAS_9; pfam13426 643561008408 putative active site [active] 643561008409 heme pocket [chemical binding]; other site 643561008410 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561008411 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561008412 metal binding site [ion binding]; metal-binding site 643561008413 active site 643561008414 I-site; other site 643561008415 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 643561008416 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 643561008417 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 643561008418 HlyD family secretion protein; Region: HlyD_3; pfam13437 643561008419 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 643561008420 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 643561008421 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 643561008422 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561008423 active site 643561008424 phosphorylation site [posttranslational modification] 643561008425 intermolecular recognition site; other site 643561008426 dimerization interface [polypeptide binding]; other site 643561008427 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 643561008428 DNA binding residues [nucleotide binding] 643561008429 dimerization interface [polypeptide binding]; other site 643561008430 CHASE3 domain; Region: CHASE3; pfam05227 643561008431 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 643561008432 dimerization interface [polypeptide binding]; other site 643561008433 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561008434 dimer interface [polypeptide binding]; other site 643561008435 putative CheW interface [polypeptide binding]; other site 643561008436 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 643561008437 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 643561008438 FMN binding site [chemical binding]; other site 643561008439 active site 643561008440 catalytic residues [active] 643561008441 substrate binding site [chemical binding]; other site 643561008442 CHASE domain; Region: CHASE; pfam03924 643561008443 PAS fold; Region: PAS_4; pfam08448 643561008444 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561008445 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561008446 metal binding site [ion binding]; metal-binding site 643561008447 active site 643561008448 I-site; other site 643561008449 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 643561008450 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 643561008451 synthetase active site [active] 643561008452 NTP binding site [chemical binding]; other site 643561008453 metal binding site [ion binding]; metal-binding site 643561008454 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 643561008455 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 643561008456 Putative Fe-S cluster; Region: FeS; cl17515 643561008457 4Fe-4S binding domain; Region: Fer4; pfam00037 643561008458 Ferredoxin [Energy production and conversion]; Region: COG1146 643561008459 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 643561008460 dimerization interface [polypeptide binding]; other site 643561008461 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561008462 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561008463 dimer interface [polypeptide binding]; other site 643561008464 putative CheW interface [polypeptide binding]; other site 643561008465 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 643561008466 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 643561008467 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561008468 homodimer interface [polypeptide binding]; other site 643561008469 catalytic residue [active] 643561008470 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 643561008471 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 643561008472 active site 643561008473 substrate binding site [chemical binding]; other site 643561008474 trimer interface [polypeptide binding]; other site 643561008475 CoA binding site [chemical binding]; other site 643561008476 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 643561008477 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 643561008478 Walker A motif; other site 643561008479 ATP binding site [chemical binding]; other site 643561008480 Walker B motif; other site 643561008481 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 643561008482 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 643561008483 metal binding site [ion binding]; metal-binding site 643561008484 dimer interface [polypeptide binding]; other site 643561008485 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 643561008486 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 643561008487 S-adenosylmethionine binding site [chemical binding]; other site 643561008488 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 643561008489 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 643561008490 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 643561008491 ABC transporter; Region: ABC_tran_2; pfam12848 643561008492 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 643561008493 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 643561008494 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 643561008495 NAD(P) binding site [chemical binding]; other site 643561008496 homotetramer interface [polypeptide binding]; other site 643561008497 homodimer interface [polypeptide binding]; other site 643561008498 active site 643561008499 putative acyltransferase; Provisional; Region: PRK05790 643561008500 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 643561008501 dimer interface [polypeptide binding]; other site 643561008502 active site 643561008503 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 643561008504 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 643561008505 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 643561008506 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 643561008507 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 643561008508 maleylacetoacetate isomerase; Region: maiA; TIGR01262 643561008509 C-terminal domain interface [polypeptide binding]; other site 643561008510 GSH binding site (G-site) [chemical binding]; other site 643561008511 putative dimer interface [polypeptide binding]; other site 643561008512 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 643561008513 dimer interface [polypeptide binding]; other site 643561008514 N-terminal domain interface [polypeptide binding]; other site 643561008515 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 643561008516 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 643561008517 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 643561008518 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 643561008519 nudix motif; other site 643561008520 Leucine rich repeat; Region: LRR_8; pfam13855 643561008521 Leucine rich repeat; Region: LRR_8; pfam13855 643561008522 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 643561008523 active site 643561008524 ATP binding site [chemical binding]; other site 643561008525 substrate binding site [chemical binding]; other site 643561008526 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 643561008527 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 643561008528 Helix-turn-helix domain; Region: HTH_18; pfam12833 643561008529 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643561008530 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 643561008531 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643561008532 substrate binding pocket [chemical binding]; other site 643561008533 membrane-bound complex binding site; other site 643561008534 hinge residues; other site 643561008535 Transglycosylase; Region: Transgly; pfam00912 643561008536 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 643561008537 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 643561008538 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 643561008539 Protein of unknown function (DUF2167); Region: DUF2167; cl01938 643561008540 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561008541 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 643561008542 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 643561008543 E3 interaction surface; other site 643561008544 lipoyl attachment site [posttranslational modification]; other site 643561008545 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 643561008546 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 643561008547 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 643561008548 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 643561008549 2-oxoglutarate dehydrogenase, E2 component, dihydrolipoamide succinyltransferase; Region: SucB_Actino; TIGR02927 643561008550 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 643561008551 E3 interaction surface; other site 643561008552 lipoyl attachment site [posttranslational modification]; other site 643561008553 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 643561008554 E3 interaction surface; other site 643561008555 lipoyl attachment site [posttranslational modification]; other site 643561008556 e3 binding domain; Region: E3_binding; pfam02817 643561008557 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 643561008558 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 643561008559 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 643561008560 dimer interface [polypeptide binding]; other site 643561008561 TPP-binding site [chemical binding]; other site 643561008562 PAS domain S-box; Region: sensory_box; TIGR00229 643561008563 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 643561008564 putative active site [active] 643561008565 heme pocket [chemical binding]; other site 643561008566 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 643561008567 dimer interface [polypeptide binding]; other site 643561008568 phosphorylation site [posttranslational modification] 643561008569 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 643561008570 ATP binding site [chemical binding]; other site 643561008571 Mg2+ binding site [ion binding]; other site 643561008572 G-X-G motif; other site 643561008573 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 643561008574 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561008575 active site 643561008576 phosphorylation site [posttranslational modification] 643561008577 intermolecular recognition site; other site 643561008578 dimerization interface [polypeptide binding]; other site 643561008579 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 643561008580 DNA binding residues [nucleotide binding] 643561008581 dimerization interface [polypeptide binding]; other site 643561008582 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 643561008583 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 643561008584 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 643561008585 homodimer interface [polypeptide binding]; other site 643561008586 NADP binding site [chemical binding]; other site 643561008587 substrate binding site [chemical binding]; other site 643561008588 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 643561008589 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 643561008590 active site 643561008591 Zn binding site [ion binding]; other site 643561008592 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 643561008593 catalytic residues [active] 643561008594 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 643561008595 tetramer (dimer of dimers) interface [polypeptide binding]; other site 643561008596 active site 643561008597 dimer interface [polypeptide binding]; other site 643561008598 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 643561008599 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 643561008600 quinone interaction residues [chemical binding]; other site 643561008601 active site 643561008602 catalytic residues [active] 643561008603 FMN binding site [chemical binding]; other site 643561008604 substrate binding site [chemical binding]; other site 643561008605 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 643561008606 hydroxyglutarate oxidase; Provisional; Region: PRK11728 643561008607 Predicted dehydrogenase [General function prediction only]; Region: COG0579 643561008608 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 643561008609 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 643561008610 active site 643561008611 Zn binding site [ion binding]; other site 643561008612 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 643561008613 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 643561008614 active site 643561008615 catalytic site [active] 643561008616 substrate binding site [chemical binding]; other site 643561008617 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 643561008618 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 643561008619 catalytic loop [active] 643561008620 iron binding site [ion binding]; other site 643561008621 chaperone protein HscA; Provisional; Region: hscA; PRK05183 643561008622 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 643561008623 nucleotide binding site [chemical binding]; other site 643561008624 putative NEF/HSP70 interaction site [polypeptide binding]; other site 643561008625 SBD interface [polypeptide binding]; other site 643561008626 co-chaperone HscB; Provisional; Region: hscB; PRK03578 643561008627 DnaJ domain; Region: DnaJ; pfam00226 643561008628 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 643561008629 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 643561008630 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 643561008631 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 643561008632 trimerization site [polypeptide binding]; other site 643561008633 active site 643561008634 cysteine desulfurase; Provisional; Region: PRK14012 643561008635 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 643561008636 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 643561008637 catalytic residue [active] 643561008638 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 643561008639 Rrf2 family protein; Region: rrf2_super; TIGR00738 643561008640 excinuclease ABC subunit B; Provisional; Region: PRK05298 643561008641 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 643561008642 ATP binding site [chemical binding]; other site 643561008643 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 643561008644 nucleotide binding region [chemical binding]; other site 643561008645 ATP-binding site [chemical binding]; other site 643561008646 Ultra-violet resistance protein B; Region: UvrB; pfam12344 643561008647 UvrB/uvrC motif; Region: UVR; pfam02151 643561008648 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 643561008649 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 643561008650 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561008651 homodimer interface [polypeptide binding]; other site 643561008652 catalytic residue [active] 643561008653 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 643561008654 CoA-transferase family III; Region: CoA_transf_3; pfam02515 643561008655 hypothetical protein; Provisional; Region: PRK01254 643561008656 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 643561008657 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 643561008658 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 643561008659 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561008660 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561008661 dimer interface [polypeptide binding]; other site 643561008662 putative CheW interface [polypeptide binding]; other site 643561008663 azurin; Region: azurin; TIGR02695 643561008664 Uncharacterized conserved protein [Function unknown]; Region: COG1739 643561008665 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 643561008666 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 643561008667 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 643561008668 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 643561008669 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 643561008670 Putative motility protein; Region: YjfB_motility; pfam14070 643561008671 hydroxyglutarate oxidase; Provisional; Region: PRK11728 643561008672 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 643561008673 hydroxyglutarate oxidase; Provisional; Region: PRK11728 643561008674 amidase; Provisional; Region: PRK07486 643561008675 Amidase; Region: Amidase; pfam01425 643561008676 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561008677 D-serine dehydratase; Provisional; Region: PRK02991 643561008678 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 643561008679 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 643561008680 catalytic residue [active] 643561008681 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561008682 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 643561008683 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 643561008684 dimerization interface [polypeptide binding]; other site 643561008685 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 643561008686 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 643561008687 RNA binding surface [nucleotide binding]; other site 643561008688 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukB; COG3096 643561008689 CheB methylesterase; Region: CheB_methylest; pfam01339 643561008690 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 643561008691 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 643561008692 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 643561008693 Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; Region: Cenp-F_leu_zip; pfam10473 643561008694 PAS domain; Region: PAS_10; pfam13596 643561008695 PAS domain S-box; Region: sensory_box; TIGR00229 643561008696 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 643561008697 putative active site [active] 643561008698 heme pocket [chemical binding]; other site 643561008699 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 643561008700 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 643561008701 putative active site [active] 643561008702 heme pocket [chemical binding]; other site 643561008703 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 643561008704 dimer interface [polypeptide binding]; other site 643561008705 phosphorylation site [posttranslational modification] 643561008706 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 643561008707 ATP binding site [chemical binding]; other site 643561008708 Mg2+ binding site [ion binding]; other site 643561008709 G-X-G motif; other site 643561008710 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 643561008711 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561008712 active site 643561008713 phosphorylation site [posttranslational modification] 643561008714 intermolecular recognition site; other site 643561008715 dimerization interface [polypeptide binding]; other site 643561008716 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 643561008717 dinuclear metal binding motif [ion binding]; other site 643561008718 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 643561008719 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 643561008720 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561008721 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561008722 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_3; cd08461 643561008723 putative substrate binding pocket [chemical binding]; other site 643561008724 putative dimerization interface [polypeptide binding]; other site 643561008725 CsbD-like; Region: CsbD; pfam05532 643561008726 aspartate kinase; Reviewed; Region: PRK06635 643561008727 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 643561008728 putative nucleotide binding site [chemical binding]; other site 643561008729 putative catalytic residues [active] 643561008730 putative Mg ion binding site [ion binding]; other site 643561008731 putative aspartate binding site [chemical binding]; other site 643561008732 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 643561008733 putative allosteric regulatory site; other site 643561008734 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 643561008735 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 643561008736 Ligand Binding Site [chemical binding]; other site 643561008737 TilS substrate binding domain; Region: TilS; pfam09179 643561008738 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 643561008739 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 643561008740 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 643561008741 endonuclease III; Region: ENDO3c; smart00478 643561008742 minor groove reading motif; other site 643561008743 helix-hairpin-helix signature motif; other site 643561008744 substrate binding pocket [chemical binding]; other site 643561008745 active site 643561008746 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 643561008747 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 643561008748 active site 643561008749 HIGH motif; other site 643561008750 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 643561008751 KMSKS motif; other site 643561008752 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 643561008753 tRNA binding surface [nucleotide binding]; other site 643561008754 anticodon binding site; other site 643561008755 TPR repeat; Region: TPR_11; pfam13414 643561008756 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 643561008757 binding surface 643561008758 TPR motif; other site 643561008759 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 643561008760 SnoaL-like domain; Region: SnoaL_3; pfam13474 643561008761 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 643561008762 substrate binding site [chemical binding]; other site 643561008763 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 643561008764 substrate binding site [chemical binding]; other site 643561008765 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 643561008766 putative active site [active] 643561008767 putative metal binding site [ion binding]; other site 643561008768 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 643561008769 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 643561008770 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 643561008771 ligand binding site [chemical binding]; other site 643561008772 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561008773 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561008774 metal binding site [ion binding]; metal-binding site 643561008775 active site 643561008776 I-site; other site 643561008777 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 643561008778 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 643561008779 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 643561008780 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561008781 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561008782 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561008783 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 643561008784 dimerization interface [polypeptide binding]; other site 643561008785 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 643561008786 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 643561008787 dimer interface [polypeptide binding]; other site 643561008788 TPP-binding site [chemical binding]; other site 643561008789 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 643561008790 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 643561008791 putative DNA binding site [nucleotide binding]; other site 643561008792 putative Zn2+ binding site [ion binding]; other site 643561008793 AsnC family; Region: AsnC_trans_reg; pfam01037 643561008794 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 643561008795 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 643561008796 Predicted esterase [General function prediction only]; Region: COG0400 643561008797 putative hydrolase; Provisional; Region: PRK11460 643561008798 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 643561008799 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 643561008800 putative active site [active] 643561008801 metal binding site [ion binding]; metal-binding site 643561008802 hypothetical protein; Provisional; Region: PRK09256 643561008803 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 643561008804 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 643561008805 Dehydroquinase class II; Region: DHquinase_II; pfam01220 643561008806 trimer interface [polypeptide binding]; other site 643561008807 active site 643561008808 dimer interface [polypeptide binding]; other site 643561008809 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 643561008810 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 643561008811 active site 643561008812 HIGH motif; other site 643561008813 nucleotide binding site [chemical binding]; other site 643561008814 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 643561008815 KMSKS motif; other site 643561008816 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 643561008817 Membrane protein of unknown function; Region: DUF360; pfam04020 643561008818 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 643561008819 active site residue [active] 643561008820 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 643561008821 active site residue [active] 643561008822 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 643561008823 active site residue [active] 643561008824 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 643561008825 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 643561008826 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643561008827 substrate binding pocket [chemical binding]; other site 643561008828 membrane-bound complex binding site; other site 643561008829 hinge residues; other site 643561008830 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561008831 dimer interface [polypeptide binding]; other site 643561008832 conserved gate region; other site 643561008833 putative PBP binding loops; other site 643561008834 ABC-ATPase subunit interface; other site 643561008835 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 643561008836 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561008837 dimer interface [polypeptide binding]; other site 643561008838 conserved gate region; other site 643561008839 putative PBP binding loops; other site 643561008840 ABC-ATPase subunit interface; other site 643561008841 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 643561008842 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 643561008843 Walker A/P-loop; other site 643561008844 ATP binding site [chemical binding]; other site 643561008845 Q-loop/lid; other site 643561008846 ABC transporter signature motif; other site 643561008847 Walker B; other site 643561008848 D-loop; other site 643561008849 H-loop/switch region; other site 643561008850 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 643561008851 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 643561008852 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 643561008853 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 643561008854 catalytic residue [active] 643561008855 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 643561008856 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 643561008857 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 643561008858 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 643561008859 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643561008860 NAD(P) binding site [chemical binding]; other site 643561008861 active site 643561008862 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 643561008863 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561008864 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 643561008865 dimerization interface [polypeptide binding]; other site 643561008866 substrate binding pocket [chemical binding]; other site 643561008867 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 643561008868 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 643561008869 active site residue [active] 643561008870 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 643561008871 active site residue [active] 643561008872 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 643561008873 active site residue [active] 643561008874 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 643561008875 active site residue [active] 643561008876 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561008877 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 643561008878 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 643561008879 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 643561008880 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 643561008881 putative hydrophobic ligand binding site [chemical binding]; other site 643561008882 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 643561008883 PLD-like domain; Region: PLDc_2; pfam13091 643561008884 putative active site [active] 643561008885 catalytic site [active] 643561008886 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 643561008887 PLD-like domain; Region: PLDc_2; pfam13091 643561008888 putative active site [active] 643561008889 catalytic site [active] 643561008890 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 643561008891 Peptidase family M23; Region: Peptidase_M23; pfam01551 643561008892 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 643561008893 pseudouridine synthase; Region: TIGR00093 643561008894 active site 643561008895 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 643561008896 enterobactin exporter EntS; Provisional; Region: PRK10489 643561008897 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 643561008898 putative substrate translocation pore; other site 643561008899 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 643561008900 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561008901 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561008902 dimer interface [polypeptide binding]; other site 643561008903 putative CheW interface [polypeptide binding]; other site 643561008904 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 643561008905 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 643561008906 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 643561008907 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 643561008908 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 643561008909 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 643561008910 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 643561008911 active site 643561008912 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 643561008913 MgtC family; Region: MgtC; pfam02308 643561008914 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 643561008915 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 643561008916 DNA binding residues [nucleotide binding] 643561008917 dimer interface [polypeptide binding]; other site 643561008918 [2Fe-2S] cluster binding site [ion binding]; other site 643561008919 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 643561008920 homotrimer interaction site [polypeptide binding]; other site 643561008921 putative active site [active] 643561008922 Transcriptional regulator [Transcription]; Region: IclR; COG1414 643561008923 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 643561008924 Bacterial transcriptional regulator; Region: IclR; pfam01614 643561008925 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 643561008926 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 643561008927 trimer interface [polypeptide binding]; other site 643561008928 eyelet of channel; other site 643561008929 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 643561008930 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 643561008931 GTP/Mg2+ binding site [chemical binding]; other site 643561008932 G4 box; other site 643561008933 G5 box; other site 643561008934 G1 box; other site 643561008935 Switch I region; other site 643561008936 G2 box; other site 643561008937 G3 box; other site 643561008938 Switch II region; other site 643561008939 GAF domain; Region: GAF; pfam01590 643561008940 GAF domain; Region: GAF_2; pfam13185 643561008941 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643561008942 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 643561008943 phosphorylation site [posttranslational modification] 643561008944 dimer interface [polypeptide binding]; other site 643561008945 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 643561008946 ATP binding site [chemical binding]; other site 643561008947 Mg2+ binding site [ion binding]; other site 643561008948 G-X-G motif; other site 643561008949 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 643561008950 thiamine pyrophosphate protein; Validated; Region: PRK08199 643561008951 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 643561008952 PYR/PP interface [polypeptide binding]; other site 643561008953 dimer interface [polypeptide binding]; other site 643561008954 TPP binding site [chemical binding]; other site 643561008955 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 643561008956 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 643561008957 TPP-binding site [chemical binding]; other site 643561008958 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 643561008959 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 643561008960 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 643561008961 classical (c) SDRs; Region: SDR_c; cd05233 643561008962 NAD(P) binding site [chemical binding]; other site 643561008963 active site 643561008964 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 643561008965 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561008966 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 643561008967 putative dimerization interface [polypeptide binding]; other site 643561008968 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 643561008969 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 643561008970 NAD(P) binding site [chemical binding]; other site 643561008971 catalytic residues [active] 643561008972 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 643561008973 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 643561008974 putative ligand binding site [chemical binding]; other site 643561008975 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 643561008976 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 643561008977 putative ligand binding site [chemical binding]; other site 643561008978 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 643561008979 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 643561008980 Walker A/P-loop; other site 643561008981 ATP binding site [chemical binding]; other site 643561008982 Q-loop/lid; other site 643561008983 ABC transporter signature motif; other site 643561008984 Walker B; other site 643561008985 D-loop; other site 643561008986 H-loop/switch region; other site 643561008987 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 643561008988 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643561008989 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 643561008990 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 643561008991 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643561008992 TM-ABC transporter signature motif; other site 643561008993 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 643561008994 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 643561008995 Walker A/P-loop; other site 643561008996 ATP binding site [chemical binding]; other site 643561008997 Q-loop/lid; other site 643561008998 ABC transporter signature motif; other site 643561008999 Walker B; other site 643561009000 D-loop; other site 643561009001 H-loop/switch region; other site 643561009002 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 643561009003 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643561009004 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 643561009005 TM-ABC transporter signature motif; other site 643561009006 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643561009007 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 643561009008 TM-ABC transporter signature motif; other site 643561009009 dihydroxy-acid dehydratase; Validated; Region: PRK06131 643561009010 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 643561009011 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 643561009012 inhibitor site; inhibition site 643561009013 active site 643561009014 dimer interface [polypeptide binding]; other site 643561009015 catalytic residue [active] 643561009016 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 643561009017 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 643561009018 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 643561009019 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 643561009020 active site 643561009021 intersubunit interface [polypeptide binding]; other site 643561009022 catalytic residue [active] 643561009023 galactonate dehydratase; Provisional; Region: PRK14017 643561009024 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 643561009025 putative active site pocket [active] 643561009026 putative metal binding site [ion binding]; other site 643561009027 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 643561009028 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 643561009029 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 643561009030 PGAP1-like protein; Region: PGAP1; pfam07819 643561009031 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 643561009032 HAMP domain; Region: HAMP; pfam00672 643561009033 dimerization interface [polypeptide binding]; other site 643561009034 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561009035 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561009036 dimer interface [polypeptide binding]; other site 643561009037 putative CheW interface [polypeptide binding]; other site 643561009038 Response regulator receiver domain; Region: Response_reg; pfam00072 643561009039 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561009040 active site 643561009041 phosphorylation site [posttranslational modification] 643561009042 intermolecular recognition site; other site 643561009043 dimerization interface [polypeptide binding]; other site 643561009044 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 643561009045 DNA binding residues [nucleotide binding] 643561009046 Response regulator receiver domain; Region: Response_reg; pfam00072 643561009047 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561009048 active site 643561009049 phosphorylation site [posttranslational modification] 643561009050 intermolecular recognition site; other site 643561009051 dimerization interface [polypeptide binding]; other site 643561009052 Response regulator receiver domain; Region: Response_reg; pfam00072 643561009053 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561009054 active site 643561009055 phosphorylation site [posttranslational modification] 643561009056 intermolecular recognition site; other site 643561009057 dimerization interface [polypeptide binding]; other site 643561009058 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 643561009059 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643561009060 substrate binding pocket [chemical binding]; other site 643561009061 membrane-bound complex binding site; other site 643561009062 hinge residues; other site 643561009063 PAS fold; Region: PAS_4; pfam08448 643561009064 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 643561009065 putative active site [active] 643561009066 heme pocket [chemical binding]; other site 643561009067 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 643561009068 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 643561009069 putative active site [active] 643561009070 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 643561009071 dimer interface [polypeptide binding]; other site 643561009072 phosphorylation site [posttranslational modification] 643561009073 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 643561009074 ATP binding site [chemical binding]; other site 643561009075 Mg2+ binding site [ion binding]; other site 643561009076 G-X-G motif; other site 643561009077 Domain of unknown function (DUF427); Region: DUF427; pfam04248 643561009078 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 643561009079 catalytic loop [active] 643561009080 iron binding site [ion binding]; other site 643561009081 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 643561009082 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 643561009083 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 643561009084 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 643561009085 dimerization interface [polypeptide binding]; other site 643561009086 active site 643561009087 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 643561009088 homopentamer interface [polypeptide binding]; other site 643561009089 active site 643561009090 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 643561009091 aminotransferase; Validated; Region: PRK07337 643561009092 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 643561009093 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561009094 homodimer interface [polypeptide binding]; other site 643561009095 catalytic residue [active] 643561009096 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 643561009097 active site 643561009098 TolQ protein; Region: tolQ; TIGR02796 643561009099 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 643561009100 TolR protein; Region: tolR; TIGR02801 643561009101 TolA protein; Region: tolA_full; TIGR02794 643561009102 TonB C terminal; Region: TonB_2; pfam13103 643561009103 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 643561009104 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 643561009105 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 643561009106 metabolite-proton symporter; Region: 2A0106; TIGR00883 643561009107 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 643561009108 putative substrate translocation pore; other site 643561009109 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 643561009110 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 643561009111 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 643561009112 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 643561009113 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 643561009114 D-pathway; other site 643561009115 Putative ubiquinol binding site [chemical binding]; other site 643561009116 Low-spin heme (heme b) binding site [chemical binding]; other site 643561009117 Putative water exit pathway; other site 643561009118 Binuclear center (heme o3/CuB) [ion binding]; other site 643561009119 K-pathway; other site 643561009120 Putative proton exit pathway; other site 643561009121 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 643561009122 Subunit I/III interface [polypeptide binding]; other site 643561009123 Subunit III/IV interface [polypeptide binding]; other site 643561009124 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 643561009125 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 643561009126 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 643561009127 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 643561009128 ATP binding site [chemical binding]; other site 643561009129 Mg2+ binding site [ion binding]; other site 643561009130 G-X-G motif; other site 643561009131 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 643561009132 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561009133 active site 643561009134 phosphorylation site [posttranslational modification] 643561009135 intermolecular recognition site; other site 643561009136 dimerization interface [polypeptide binding]; other site 643561009137 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 643561009138 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561009139 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561009140 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 643561009141 dimerization interface [polypeptide binding]; other site 643561009142 putative protease; Provisional; Region: PRK15452 643561009143 Peptidase family U32; Region: Peptidase_U32; pfam01136 643561009144 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 643561009145 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 643561009146 non-specific DNA binding site [nucleotide binding]; other site 643561009147 salt bridge; other site 643561009148 sequence-specific DNA binding site [nucleotide binding]; other site 643561009149 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 643561009150 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 643561009151 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 643561009152 substrate binding site [chemical binding]; other site 643561009153 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 643561009154 substrate binding site [chemical binding]; other site 643561009155 ligand binding site [chemical binding]; other site 643561009156 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 643561009157 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 643561009158 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 643561009159 S-adenosylmethionine binding site [chemical binding]; other site 643561009160 malate dehydrogenase; Provisional; Region: PRK05442 643561009161 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 643561009162 NAD(P) binding site [chemical binding]; other site 643561009163 dimer interface [polypeptide binding]; other site 643561009164 malate binding site [chemical binding]; other site 643561009165 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 643561009166 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643561009167 DNA-binding site [nucleotide binding]; DNA binding site 643561009168 UTRA domain; Region: UTRA; pfam07702 643561009169 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 643561009170 Iron-sulfur protein interface; other site 643561009171 proximal quinone binding site [chemical binding]; other site 643561009172 SdhD (CybS) interface [polypeptide binding]; other site 643561009173 proximal heme binding site [chemical binding]; other site 643561009174 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 643561009175 SdhC subunit interface [polypeptide binding]; other site 643561009176 proximal heme binding site [chemical binding]; other site 643561009177 cardiolipin binding site; other site 643561009178 Iron-sulfur protein interface; other site 643561009179 proximal quinone binding site [chemical binding]; other site 643561009180 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 643561009181 L-aspartate oxidase; Provisional; Region: PRK06175 643561009182 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 643561009183 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 643561009184 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 643561009185 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 643561009186 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 643561009187 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 643561009188 dimer interface [polypeptide binding]; other site 643561009189 active site 643561009190 citrylCoA binding site [chemical binding]; other site 643561009191 NADH binding [chemical binding]; other site 643561009192 cationic pore residues; other site 643561009193 oxalacetate/citrate binding site [chemical binding]; other site 643561009194 coenzyme A binding site [chemical binding]; other site 643561009195 catalytic triad [active] 643561009196 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 643561009197 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 643561009198 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 643561009199 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 643561009200 conserved cys residue [active] 643561009201 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643561009202 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643561009203 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 643561009204 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 643561009205 substrate binding site [chemical binding]; other site 643561009206 catalytic Zn binding site [ion binding]; other site 643561009207 NAD binding site [chemical binding]; other site 643561009208 structural Zn binding site [ion binding]; other site 643561009209 dimer interface [polypeptide binding]; other site 643561009210 S-formylglutathione hydrolase; Region: PLN02442 643561009211 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 643561009212 putative metal dependent hydrolase; Provisional; Region: PRK11598 643561009213 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 643561009214 Sulfatase; Region: Sulfatase; pfam00884 643561009215 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561009216 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561009217 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 643561009218 dimerization interface [polypeptide binding]; other site 643561009219 Cache domain; Region: Cache_2; pfam08269 643561009220 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561009221 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561009222 dimer interface [polypeptide binding]; other site 643561009223 putative CheW interface [polypeptide binding]; other site 643561009224 succinic semialdehyde dehydrogenase; Region: PLN02278 643561009225 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 643561009226 tetramerization interface [polypeptide binding]; other site 643561009227 NAD(P) binding site [chemical binding]; other site 643561009228 catalytic residues [active] 643561009229 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 643561009230 tartrate dehydrogenase; Region: TTC; TIGR02089 643561009231 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 643561009232 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 643561009233 Walker A/P-loop; other site 643561009234 ATP binding site [chemical binding]; other site 643561009235 Q-loop/lid; other site 643561009236 ABC transporter signature motif; other site 643561009237 Walker B; other site 643561009238 D-loop; other site 643561009239 H-loop/switch region; other site 643561009240 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 643561009241 Walker A/P-loop; other site 643561009242 ATP binding site [chemical binding]; other site 643561009243 Q-loop/lid; other site 643561009244 ABC transporter signature motif; other site 643561009245 Walker B; other site 643561009246 D-loop; other site 643561009247 H-loop/switch region; other site 643561009248 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 643561009249 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 643561009250 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561009251 dimer interface [polypeptide binding]; other site 643561009252 conserved gate region; other site 643561009253 ABC-ATPase subunit interface; other site 643561009254 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 643561009255 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561009256 dimer interface [polypeptide binding]; other site 643561009257 conserved gate region; other site 643561009258 putative PBP binding loops; other site 643561009259 ABC-ATPase subunit interface; other site 643561009260 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 643561009261 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 643561009262 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 643561009263 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 643561009264 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 643561009265 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 643561009266 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 643561009267 Coenzyme A binding pocket [chemical binding]; other site 643561009268 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 643561009269 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 643561009270 putative ligand binding site [chemical binding]; other site 643561009271 NAD binding site [chemical binding]; other site 643561009272 dimerization interface [polypeptide binding]; other site 643561009273 catalytic site [active] 643561009274 hypothetical protein; Provisional; Region: PRK05965 643561009275 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 643561009276 inhibitor-cofactor binding pocket; inhibition site 643561009277 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561009278 catalytic residue [active] 643561009279 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 643561009280 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 643561009281 putative DNA binding site [nucleotide binding]; other site 643561009282 putative Zn2+ binding site [ion binding]; other site 643561009283 AsnC family; Region: AsnC_trans_reg; pfam01037 643561009284 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 643561009285 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 643561009286 metal binding site [ion binding]; metal-binding site 643561009287 putative dimer interface [polypeptide binding]; other site 643561009288 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 643561009289 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 643561009290 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 643561009291 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 643561009292 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 643561009293 FeS/SAM binding site; other site 643561009294 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 643561009295 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 643561009296 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 643561009297 FMN binding site [chemical binding]; other site 643561009298 substrate binding site [chemical binding]; other site 643561009299 putative catalytic residue [active] 643561009300 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 643561009301 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 643561009302 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 643561009303 active site 643561009304 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 643561009305 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 643561009306 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 643561009307 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 643561009308 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 643561009309 Ligand binding site [chemical binding]; other site 643561009310 Electron transfer flavoprotein domain; Region: ETF; pfam01012 643561009311 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 643561009312 Mechanosensitive ion channel; Region: MS_channel; pfam00924 643561009313 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 643561009314 enoyl-CoA hydratase; Validated; Region: PRK08139 643561009315 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 643561009316 substrate binding site [chemical binding]; other site 643561009317 oxyanion hole (OAH) forming residues; other site 643561009318 trimer interface [polypeptide binding]; other site 643561009319 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 643561009320 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 643561009321 putative active site [active] 643561009322 Zn binding site [ion binding]; other site 643561009323 MoxR-like ATPases [General function prediction only]; Region: COG0714 643561009324 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 643561009325 Walker A motif; other site 643561009326 ATP binding site [chemical binding]; other site 643561009327 Walker B motif; other site 643561009328 arginine finger; other site 643561009329 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 643561009330 Protein of unknown function DUF58; Region: DUF58; pfam01882 643561009331 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 643561009332 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 643561009333 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 643561009334 Transglycosylase SLT domain; Region: SLT_2; pfam13406 643561009335 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 643561009336 N-acetyl-D-glucosamine binding site [chemical binding]; other site 643561009337 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643561009338 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643561009339 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 643561009340 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 643561009341 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643561009342 NAD(P) binding site [chemical binding]; other site 643561009343 active site 643561009344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643561009345 NAD(P) binding site [chemical binding]; other site 643561009346 acyl-CoA synthetase; Validated; Region: PRK06188 643561009347 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 643561009348 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 643561009349 acyl-activating enzyme (AAE) consensus motif; other site 643561009350 putative AMP binding site [chemical binding]; other site 643561009351 putative active site [active] 643561009352 putative CoA binding site [chemical binding]; other site 643561009353 lipid-transfer protein; Provisional; Region: PRK08256 643561009354 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 643561009355 active site 643561009356 NnrS protein; Region: NnrS; pfam05940 643561009357 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 643561009358 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643561009359 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643561009360 Acinetobacter rhombotarget A; Region: GlyGly_RbtA; TIGR04212 643561009361 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 643561009362 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 643561009363 putative ligand binding site [chemical binding]; other site 643561009364 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 643561009365 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 643561009366 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 643561009367 UGMP family protein; Validated; Region: PRK09604 643561009368 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 643561009369 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 643561009370 dimerization interface [polypeptide binding]; other site 643561009371 ligand binding site [chemical binding]; other site 643561009372 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 643561009373 ANTAR domain; Region: ANTAR; pfam03861 643561009374 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 643561009375 NMT1-like family; Region: NMT1_2; pfam13379 643561009376 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 643561009377 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561009378 dimer interface [polypeptide binding]; other site 643561009379 conserved gate region; other site 643561009380 putative PBP binding loops; other site 643561009381 ABC-ATPase subunit interface; other site 643561009382 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 643561009383 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 643561009384 Walker A/P-loop; other site 643561009385 ATP binding site [chemical binding]; other site 643561009386 Q-loop/lid; other site 643561009387 ABC transporter signature motif; other site 643561009388 Walker B; other site 643561009389 D-loop; other site 643561009390 H-loop/switch region; other site 643561009391 RibD C-terminal domain; Region: RibD_C; cl17279 643561009392 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 643561009393 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643561009394 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643561009395 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 643561009396 Major Facilitator Superfamily; Region: MFS_1; pfam07690 643561009397 putative substrate translocation pore; other site 643561009398 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561009399 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561009400 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 643561009401 dimerization interface [polypeptide binding]; other site 643561009402 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 643561009403 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 643561009404 FAD binding domain; Region: FAD_binding_4; pfam01565 643561009405 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 643561009406 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 643561009407 NAD(P) binding site [chemical binding]; other site 643561009408 catalytic residues [active] 643561009409 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 643561009410 active site 643561009411 metal binding site [ion binding]; metal-binding site 643561009412 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 643561009413 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 643561009414 putative substrate translocation pore; other site 643561009415 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 643561009416 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 643561009417 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 643561009418 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 643561009419 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 643561009420 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561009421 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561009422 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 643561009423 putative effector binding pocket; other site 643561009424 dimerization interface [polypeptide binding]; other site 643561009425 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 643561009426 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 643561009427 Predicted membrane protein [Function unknown]; Region: COG2259 643561009428 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 643561009429 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 643561009430 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 643561009431 substrate binding pocket [chemical binding]; other site 643561009432 catalytic triad [active] 643561009433 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 643561009434 putative catalytic site [active] 643561009435 putative phosphate binding site [ion binding]; other site 643561009436 active site 643561009437 metal binding site A [ion binding]; metal-binding site 643561009438 DNA binding site [nucleotide binding] 643561009439 putative AP binding site [nucleotide binding]; other site 643561009440 putative metal binding site B [ion binding]; other site 643561009441 Response regulator receiver domain; Region: Response_reg; pfam00072 643561009442 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561009443 active site 643561009444 phosphorylation site [posttranslational modification] 643561009445 intermolecular recognition site; other site 643561009446 dimerization interface [polypeptide binding]; other site 643561009447 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 643561009448 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561009449 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561009450 putative CheW interface [polypeptide binding]; other site 643561009451 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 643561009452 dimerization interface [polypeptide binding]; other site 643561009453 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 643561009454 ATP binding site [chemical binding]; other site 643561009455 Mg2+ binding site [ion binding]; other site 643561009456 G-X-G motif; other site 643561009457 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 643561009458 classical (c) SDRs; Region: SDR_c; cd05233 643561009459 NAD(P) binding site [chemical binding]; other site 643561009460 active site 643561009461 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561009462 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561009463 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 643561009464 putative effector binding pocket; other site 643561009465 putative dimerization interface [polypeptide binding]; other site 643561009466 Trehalase; Region: Trehalase; cl17346 643561009467 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 643561009468 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 643561009469 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 643561009470 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 643561009471 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 643561009472 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 643561009473 FOG: CBS domain [General function prediction only]; Region: COG0517 643561009474 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 643561009475 PAS domain; Region: PAS_9; pfam13426 643561009476 putative active site [active] 643561009477 heme pocket [chemical binding]; other site 643561009478 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561009479 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561009480 dimer interface [polypeptide binding]; other site 643561009481 putative CheW interface [polypeptide binding]; other site 643561009482 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 643561009483 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 643561009484 HlyD family secretion protein; Region: HlyD_3; pfam13437 643561009485 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 643561009486 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 643561009487 CheD chemotactic sensory transduction; Region: CheD; cl00810 643561009488 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 643561009489 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 643561009490 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 643561009491 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 643561009492 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 643561009493 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 643561009494 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 643561009495 PAS fold; Region: PAS_3; pfam08447 643561009496 putative active site [active] 643561009497 heme pocket [chemical binding]; other site 643561009498 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 643561009499 PAS fold; Region: PAS_3; pfam08447 643561009500 putative active site [active] 643561009501 heme pocket [chemical binding]; other site 643561009502 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561009503 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561009504 dimer interface [polypeptide binding]; other site 643561009505 putative CheW interface [polypeptide binding]; other site 643561009506 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 643561009507 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 643561009508 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 643561009509 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 643561009510 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 643561009511 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 643561009512 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 643561009513 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 643561009514 [2Fe-2S] cluster binding site [ion binding]; other site 643561009515 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 643561009516 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 643561009517 [4Fe-4S] binding site [ion binding]; other site 643561009518 molybdopterin cofactor binding site; other site 643561009519 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 643561009520 molybdopterin cofactor binding site; other site 643561009521 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 643561009522 glycosyl transferase family protein; Provisional; Region: PRK08136 643561009523 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 643561009524 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 643561009525 active site 643561009526 SAM binding site [chemical binding]; other site 643561009527 homodimer interface [polypeptide binding]; other site 643561009528 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 643561009529 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 643561009530 CBD_II domain; Region: CBD_II; smart00637 643561009531 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 643561009532 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 643561009533 active site clefts [active] 643561009534 zinc binding site [ion binding]; other site 643561009535 dimer interface [polypeptide binding]; other site 643561009536 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 643561009537 Sulfate transporter family; Region: Sulfate_transp; pfam00916 643561009538 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 643561009539 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 643561009540 HI0933-like protein; Region: HI0933_like; pfam03486 643561009541 Predicted transcriptional regulators [Transcription]; Region: ArsR; COG0640 643561009542 NIPSNAP; Region: NIPSNAP; pfam07978 643561009543 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 643561009544 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 643561009545 dimerization interface [polypeptide binding]; other site 643561009546 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 643561009547 PAS domain; Region: PAS_9; pfam13426 643561009548 putative active site [active] 643561009549 heme pocket [chemical binding]; other site 643561009550 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561009551 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561009552 metal binding site [ion binding]; metal-binding site 643561009553 active site 643561009554 I-site; other site 643561009555 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 643561009556 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 643561009557 Yqey-like protein; Region: YqeY; pfam09424 643561009558 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 643561009559 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 643561009560 putative C-terminal domain interface [polypeptide binding]; other site 643561009561 putative GSH binding site (G-site) [chemical binding]; other site 643561009562 putative dimer interface [polypeptide binding]; other site 643561009563 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 643561009564 dimer interface [polypeptide binding]; other site 643561009565 N-terminal domain interface [polypeptide binding]; other site 643561009566 putative substrate binding pocket (H-site) [chemical binding]; other site 643561009567 HTH domain; Region: HTH_11; pfam08279 643561009568 WYL domain; Region: WYL; pfam13280 643561009569 transcriptional activator TtdR; Provisional; Region: PRK09801 643561009570 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561009571 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 643561009572 putative effector binding pocket; other site 643561009573 putative dimerization interface [polypeptide binding]; other site 643561009574 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 643561009575 tartrate dehydrogenase; Region: TTC; TIGR02089 643561009576 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 643561009577 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 643561009578 active site 643561009579 nucleophile elbow; other site 643561009580 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 643561009581 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 643561009582 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 643561009583 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 643561009584 dimer interface [polypeptide binding]; other site 643561009585 active site 643561009586 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 643561009587 substrate binding site [chemical binding]; other site 643561009588 catalytic residue [active] 643561009589 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561009590 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561009591 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 643561009592 dimerization interface [polypeptide binding]; other site 643561009593 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561009594 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561009595 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 643561009596 dimerization interface [polypeptide binding]; other site 643561009597 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 643561009598 Transposase; Region: DEDD_Tnp_IS110; pfam01548 643561009599 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 643561009600 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 643561009601 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 643561009602 galactarate dehydratase; Region: galactar-dH20; TIGR03248 643561009603 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 643561009604 succinic semialdehyde dehydrogenase; Region: PLN02278 643561009605 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 643561009606 tetramerization interface [polypeptide binding]; other site 643561009607 NAD(P) binding site [chemical binding]; other site 643561009608 catalytic residues [active] 643561009609 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 643561009610 IPTL-CTERM protein sorting domain; Region: IPTL_CTERM; TIGR04174 643561009611 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 643561009612 peptidase PmbA; Provisional; Region: PRK11040 643561009613 Protein of unknown function (DUF615); Region: DUF615; pfam04751 643561009614 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 643561009615 MPT binding site; other site 643561009616 trimer interface [polypeptide binding]; other site 643561009617 serine O-acetyltransferase; Region: cysE; TIGR01172 643561009618 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 643561009619 trimer interface [polypeptide binding]; other site 643561009620 active site 643561009621 substrate binding site [chemical binding]; other site 643561009622 CoA binding site [chemical binding]; other site 643561009623 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 643561009624 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 643561009625 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 643561009626 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 643561009627 active site 643561009628 homotetramer interface [polypeptide binding]; other site 643561009629 ATP-binding cassette domain of an uncharacterized transporter similar in sequence to NatA; Region: ABC_NatA_like; cd03267 643561009630 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 643561009631 Walker A/P-loop; other site 643561009632 ATP binding site [chemical binding]; other site 643561009633 Q-loop/lid; other site 643561009634 ABC transporter signature motif; other site 643561009635 Walker B; other site 643561009636 D-loop; other site 643561009637 H-loop/switch region; other site 643561009638 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 643561009639 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 643561009640 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 643561009641 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 643561009642 active site 643561009643 dimerization interface [polypeptide binding]; other site 643561009644 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 643561009645 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561009646 active site 643561009647 phosphorylation site [posttranslational modification] 643561009648 intermolecular recognition site; other site 643561009649 dimerization interface [polypeptide binding]; other site 643561009650 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643561009651 Zn2+ binding site [ion binding]; other site 643561009652 Mg2+ binding site [ion binding]; other site 643561009653 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 643561009654 PAS domain; Region: PAS_9; pfam13426 643561009655 putative active site [active] 643561009656 heme pocket [chemical binding]; other site 643561009657 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 643561009658 PAS domain; Region: PAS_9; pfam13426 643561009659 putative active site [active] 643561009660 heme pocket [chemical binding]; other site 643561009661 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 643561009662 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 643561009663 putative active site [active] 643561009664 heme pocket [chemical binding]; other site 643561009665 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 643561009666 putative active site [active] 643561009667 heme pocket [chemical binding]; other site 643561009668 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 643561009669 dimer interface [polypeptide binding]; other site 643561009670 phosphorylation site [posttranslational modification] 643561009671 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 643561009672 ATP binding site [chemical binding]; other site 643561009673 Mg2+ binding site [ion binding]; other site 643561009674 G-X-G motif; other site 643561009675 Response regulator receiver domain; Region: Response_reg; pfam00072 643561009676 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561009677 active site 643561009678 phosphorylation site [posttranslational modification] 643561009679 intermolecular recognition site; other site 643561009680 dimerization interface [polypeptide binding]; other site 643561009681 Response regulator receiver domain; Region: Response_reg; pfam00072 643561009682 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561009683 active site 643561009684 phosphorylation site [posttranslational modification] 643561009685 intermolecular recognition site; other site 643561009686 dimerization interface [polypeptide binding]; other site 643561009687 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 643561009688 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 643561009689 Mechanosensitive ion channel; Region: MS_channel; pfam00924 643561009690 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 643561009691 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 643561009692 CoA binding domain; Region: CoA_binding_2; pfam13380 643561009693 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 643561009694 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 643561009695 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 643561009696 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 643561009697 substrate binding site [chemical binding]; other site 643561009698 oxyanion hole (OAH) forming residues; other site 643561009699 trimer interface [polypeptide binding]; other site 643561009700 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561009701 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 643561009702 Transcriptional regulator [Transcription]; Region: IclR; COG1414 643561009703 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 643561009704 GAF domain; Region: GAF; pfam01590 643561009705 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561009706 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 643561009707 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 643561009708 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 643561009709 MutS domain I; Region: MutS_I; pfam01624 643561009710 MutS domain II; Region: MutS_II; pfam05188 643561009711 MutS domain III; Region: MutS_III; pfam05192 643561009712 MutS domain V; Region: MutS_V; pfam00488 643561009713 Walker A/P-loop; other site 643561009714 ATP binding site [chemical binding]; other site 643561009715 Q-loop/lid; other site 643561009716 ABC transporter signature motif; other site 643561009717 Walker B; other site 643561009718 D-loop; other site 643561009719 H-loop/switch region; other site 643561009720 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 643561009721 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 643561009722 NAD binding site [chemical binding]; other site 643561009723 homotetramer interface [polypeptide binding]; other site 643561009724 homodimer interface [polypeptide binding]; other site 643561009725 substrate binding site [chemical binding]; other site 643561009726 active site 643561009727 Transposase domain (DUF772); Region: DUF772; pfam05598 643561009728 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 643561009729 DDE superfamily endonuclease; Region: DDE_4; cl17710 643561009730 PAAR motif; Region: PAAR_motif; cl15808 643561009731 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 643561009732 RHS Repeat; Region: RHS_repeat; pfam05593 643561009733 RHS Repeat; Region: RHS_repeat; pfam05593 643561009734 RHS Repeat; Region: RHS_repeat; pfam05593 643561009735 RHS protein; Region: RHS; pfam03527 643561009736 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 643561009737 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 643561009738 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 643561009739 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 643561009740 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 643561009741 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 643561009742 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 643561009743 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 643561009744 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 643561009745 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 643561009746 FAD binding domain; Region: FAD_binding_4; pfam01565 643561009747 Berberine and berberine like; Region: BBE; pfam08031 643561009748 PAS fold; Region: PAS_4; pfam08448 643561009749 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 643561009750 putative active site [active] 643561009751 heme pocket [chemical binding]; other site 643561009752 PAS domain; Region: PAS_9; pfam13426 643561009753 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561009754 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561009755 metal binding site [ion binding]; metal-binding site 643561009756 active site 643561009757 I-site; other site 643561009758 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 643561009759 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 643561009760 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 643561009761 Protein export membrane protein; Region: SecD_SecF; cl14618 643561009762 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 643561009763 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 643561009764 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 643561009765 Histidine kinase; Region: His_kinase; pfam06580 643561009766 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 643561009767 ATP binding site [chemical binding]; other site 643561009768 Mg2+ binding site [ion binding]; other site 643561009769 G-X-G motif; other site 643561009770 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 643561009771 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561009772 active site 643561009773 phosphorylation site [posttranslational modification] 643561009774 intermolecular recognition site; other site 643561009775 dimerization interface [polypeptide binding]; other site 643561009776 LytTr DNA-binding domain; Region: LytTR; smart00850 643561009777 LysE type translocator; Region: LysE; cl00565 643561009778 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 643561009779 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643561009780 heme ABC exporter, ATP-binding protein CcmA; Region: ccmA; TIGR01189 643561009781 Walker A/P-loop; other site 643561009782 ATP binding site [chemical binding]; other site 643561009783 Q-loop/lid; other site 643561009784 ABC transporter signature motif; other site 643561009785 Walker B; other site 643561009786 D-loop; other site 643561009787 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 643561009788 TOBE domain; Region: TOBE; cl01440 643561009789 PAAR motif; Region: PAAR_motif; cl15808 643561009790 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 643561009791 RHS Repeat; Region: RHS_repeat; pfam05593 643561009792 RHS Repeat; Region: RHS_repeat; pfam05593 643561009793 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 643561009794 RHS protein; Region: RHS; pfam03527 643561009795 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 643561009796 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 643561009797 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 643561009798 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561009799 dimer interface [polypeptide binding]; other site 643561009800 ABC-ATPase subunit interface; other site 643561009801 putative PBP binding loops; other site 643561009802 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643561009803 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 643561009804 Walker A/P-loop; other site 643561009805 ATP binding site [chemical binding]; other site 643561009806 Q-loop/lid; other site 643561009807 ABC transporter signature motif; other site 643561009808 Walker B; other site 643561009809 D-loop; other site 643561009810 H-loop/switch region; other site 643561009811 TOBE domain; Region: TOBE; cl01440 643561009812 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 643561009813 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 643561009814 tetramer interface [polypeptide binding]; other site 643561009815 active site 643561009816 BCCT family transporter; Region: BCCT; pfam02028 643561009817 glycogen branching enzyme; Provisional; Region: PRK12313 643561009818 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 643561009819 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 643561009820 active site 643561009821 catalytic site [active] 643561009822 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 643561009823 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 643561009824 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 643561009825 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 643561009826 active site 643561009827 homodimer interface [polypeptide binding]; other site 643561009828 catalytic site [active] 643561009829 acceptor binding site [chemical binding]; other site 643561009830 trehalose synthase; Region: treS_nterm; TIGR02456 643561009831 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 643561009832 active site 643561009833 catalytic site [active] 643561009834 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 643561009835 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 643561009836 Conserved TM helix; Region: TM_helix; pfam05552 643561009837 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 643561009838 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 643561009839 DctM-like transporters; Region: DctM; pfam06808 643561009840 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 643561009841 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 643561009842 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 643561009843 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 643561009844 TPP-binding site; other site 643561009845 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 643561009846 PYR/PP interface [polypeptide binding]; other site 643561009847 dimer interface [polypeptide binding]; other site 643561009848 TPP binding site [chemical binding]; other site 643561009849 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 643561009850 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 643561009851 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 643561009852 substrate binding pocket [chemical binding]; other site 643561009853 substrate-Mg2+ binding site; other site 643561009854 aspartate-rich region 1; other site 643561009855 aspartate-rich region 2; other site 643561009856 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 643561009857 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 643561009858 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 643561009859 [2Fe-2S] cluster binding site [ion binding]; other site 643561009860 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 643561009861 alpha subunit interface [polypeptide binding]; other site 643561009862 active site 643561009863 substrate binding site [chemical binding]; other site 643561009864 Fe binding site [ion binding]; other site 643561009865 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 643561009866 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 643561009867 active site residue [active] 643561009868 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 643561009869 active site residue [active] 643561009870 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 643561009871 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 643561009872 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 643561009873 Walker A/P-loop; other site 643561009874 ATP binding site [chemical binding]; other site 643561009875 Q-loop/lid; other site 643561009876 ABC transporter signature motif; other site 643561009877 Walker B; other site 643561009878 D-loop; other site 643561009879 H-loop/switch region; other site 643561009880 NIL domain; Region: NIL; pfam09383 643561009881 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561009882 dimer interface [polypeptide binding]; other site 643561009883 conserved gate region; other site 643561009884 ABC-ATPase subunit interface; other site 643561009885 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 643561009886 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 643561009887 active site 643561009888 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 643561009889 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 643561009890 active site 643561009891 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 643561009892 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 643561009893 active site 643561009894 non-prolyl cis peptide bond; other site 643561009895 Flagellar transcriptional activator (FlhD); Region: FlhD; pfam05247 643561009896 transcriptional activator FlhC; Provisional; Region: PRK12722 643561009897 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 643561009898 Domain of unknown function DUF20; Region: UPF0118; pfam01594 643561009899 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 643561009900 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 643561009901 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 643561009902 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 643561009903 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 643561009904 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 643561009905 domain interfaces; other site 643561009906 active site 643561009907 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 643561009908 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 643561009909 active site 643561009910 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 643561009911 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 643561009912 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 643561009913 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 643561009914 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 643561009915 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 643561009916 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 643561009917 Zn binding site [ion binding]; other site 643561009918 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 643561009919 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 643561009920 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 643561009921 HIGH motif; other site 643561009922 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 643561009923 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 643561009924 active site 643561009925 KMSKS motif; other site 643561009926 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 643561009927 tRNA binding surface [nucleotide binding]; other site 643561009928 anticodon binding site; other site 643561009929 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 643561009930 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 643561009931 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 643561009932 active site 643561009933 tetramer interface; other site 643561009934 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 643561009935 CPxP motif; other site 643561009936 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 643561009937 nudix motif; other site 643561009938 cysteine synthase B; Region: cysM; TIGR01138 643561009939 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 643561009940 dimer interface [polypeptide binding]; other site 643561009941 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561009942 catalytic residue [active] 643561009943 DNA topoisomerase; Region: Topoisom_bac; pfam01131 643561009944 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 643561009945 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561009946 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 643561009947 dimerization interface [polypeptide binding]; other site 643561009948 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 643561009949 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 643561009950 FAD binding site [chemical binding]; other site 643561009951 substrate binding pocket [chemical binding]; other site 643561009952 catalytic base [active] 643561009953 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 643561009954 CoA-transferase family III; Region: CoA_transf_3; pfam02515 643561009955 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 643561009956 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643561009957 NAD(P) binding site [chemical binding]; other site 643561009958 active site 643561009959 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 643561009960 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 643561009961 catalytic loop [active] 643561009962 iron binding site [ion binding]; other site 643561009963 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 643561009964 FAD binding pocket [chemical binding]; other site 643561009965 FAD binding motif [chemical binding]; other site 643561009966 phosphate binding motif [ion binding]; other site 643561009967 beta-alpha-beta structure motif; other site 643561009968 NAD binding pocket [chemical binding]; other site 643561009969 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561009970 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 643561009971 catalytic center binding site [active] 643561009972 ATP binding site [chemical binding]; other site 643561009973 poly(A) polymerase; Region: pcnB; TIGR01942 643561009974 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 643561009975 active site 643561009976 NTP binding site [chemical binding]; other site 643561009977 metal binding triad [ion binding]; metal-binding site 643561009978 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 643561009979 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 643561009980 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 643561009981 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 643561009982 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 643561009983 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 643561009984 Walker A motif; other site 643561009985 ATP binding site [chemical binding]; other site 643561009986 Walker B motif; other site 643561009987 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 643561009988 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 643561009989 dimerization interface [polypeptide binding]; other site 643561009990 putative ATP binding site [chemical binding]; other site 643561009991 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 643561009992 Isochorismatase family; Region: Isochorismatase; pfam00857 643561009993 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 643561009994 catalytic triad [active] 643561009995 conserved cis-peptide bond; other site 643561009996 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 643561009997 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 643561009998 conserved cys residue [active] 643561009999 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 643561010000 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 643561010001 conserved cys residue [active] 643561010002 DNA polymerase IV; Validated; Region: PRK03352 643561010003 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 643561010004 active site 643561010005 DNA binding site [nucleotide binding] 643561010006 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 643561010007 apolar tunnel; other site 643561010008 heme binding site [chemical binding]; other site 643561010009 dimerization interface [polypeptide binding]; other site 643561010010 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 643561010011 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 643561010012 Nitrate and nitrite sensing; Region: NIT; pfam08376 643561010013 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 643561010014 dimerization interface [polypeptide binding]; other site 643561010015 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561010016 dimer interface [polypeptide binding]; other site 643561010017 putative CheW interface [polypeptide binding]; other site 643561010018 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 643561010019 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 643561010020 phosphate binding site [ion binding]; other site 643561010021 EamA-like transporter family; Region: EamA; pfam00892 643561010022 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 643561010023 Transglycosylase; Region: Transgly; pfam00912 643561010024 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 643561010025 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 643561010026 CHASE3 domain; Region: CHASE3; pfam05227 643561010027 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 643561010028 dimerization interface [polypeptide binding]; other site 643561010029 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561010030 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561010031 dimer interface [polypeptide binding]; other site 643561010032 putative CheW interface [polypeptide binding]; other site 643561010033 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 643561010034 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 643561010035 Bacterial Ig-like domain; Region: Big_5; pfam13205 643561010036 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 643561010037 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 643561010038 MG2 domain; Region: A2M_N; pfam01835 643561010039 Alpha-2-macroglobulin family; Region: A2M; pfam00207 643561010040 OpgC protein; Region: OpgC_C; pfam10129 643561010041 Acyltransferase family; Region: Acyl_transf_3; pfam01757 643561010042 Members of the SGNH-hydrolase superfamily, 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_like_7; cd04502 643561010043 active site 643561010044 catalytic triad [active] 643561010045 oxyanion hole [active] 643561010046 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 643561010047 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 643561010048 putative substrate translocation pore; other site 643561010049 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 643561010050 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561010051 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 643561010052 putative dimerization interface [polypeptide binding]; other site 643561010053 putative substrate binding pocket [chemical binding]; other site 643561010054 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561010055 argininosuccinate lyase; Provisional; Region: PRK00855 643561010056 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 643561010057 active sites [active] 643561010058 tetramer interface [polypeptide binding]; other site 643561010059 Histidine kinase; Region: His_kinase; pfam06580 643561010060 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 643561010061 ATP binding site [chemical binding]; other site 643561010062 Mg2+ binding site [ion binding]; other site 643561010063 G-X-G motif; other site 643561010064 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 643561010065 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561010066 active site 643561010067 phosphorylation site [posttranslational modification] 643561010068 intermolecular recognition site; other site 643561010069 dimerization interface [polypeptide binding]; other site 643561010070 LytTr DNA-binding domain; Region: LytTR; smart00850 643561010071 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 643561010072 Transposase; Region: DEDD_Tnp_IS110; pfam01548 643561010073 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 643561010074 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 643561010075 Argininosuccinate lyase [Amino acid transport and metabolism]; Region: ArgH; COG0165 643561010076 active sites [active] 643561010077 tetramer interface [polypeptide binding]; other site 643561010078 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 643561010079 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 643561010080 Dienelactone hydrolase family; Region: DLH; pfam01738 643561010081 Predicted transcriptional regulators [Transcription]; Region: COG1510 643561010082 MarR family; Region: MarR_2; pfam12802 643561010083 Protein of unknown function, DUF393; Region: DUF393; pfam04134 643561010084 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 643561010085 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 643561010086 putative NAD(P) binding site [chemical binding]; other site 643561010087 active site 643561010088 DoxX-like family; Region: DoxX_3; pfam13781 643561010089 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 643561010090 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 643561010091 aspartate racemase; Region: asp_race; TIGR00035 643561010092 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 643561010093 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643561010094 substrate binding pocket [chemical binding]; other site 643561010095 membrane-bound complex binding site; other site 643561010096 hinge residues; other site 643561010097 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 643561010098 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 643561010099 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 643561010100 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561010101 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 643561010102 dimerization interface [polypeptide binding]; other site 643561010103 IPTL-CTERM protein sorting domain; Region: IPTL_CTERM; TIGR04174 643561010104 DNA polymerase I; Provisional; Region: PRK05755 643561010105 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 643561010106 active site 643561010107 metal binding site 1 [ion binding]; metal-binding site 643561010108 putative 5' ssDNA interaction site; other site 643561010109 metal binding site 3; metal-binding site 643561010110 metal binding site 2 [ion binding]; metal-binding site 643561010111 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 643561010112 putative DNA binding site [nucleotide binding]; other site 643561010113 putative metal binding site [ion binding]; other site 643561010114 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 643561010115 active site 643561010116 catalytic site [active] 643561010117 substrate binding site [chemical binding]; other site 643561010118 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 643561010119 active site 643561010120 DNA binding site [nucleotide binding] 643561010121 catalytic site [active] 643561010122 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 643561010123 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 643561010124 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 643561010125 putative active site [active] 643561010126 putative substrate binding site [chemical binding]; other site 643561010127 ATP binding site [chemical binding]; other site 643561010128 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 643561010129 Imelysin; Region: Peptidase_M75; cl09159 643561010130 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 643561010131 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 643561010132 Imelysin; Region: Peptidase_M75; pfam09375 643561010133 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 643561010134 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 643561010135 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 643561010136 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 643561010137 Phage Tail Collar Domain; Region: Collar; pfam07484 643561010138 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 643561010139 Part of AAA domain; Region: AAA_19; pfam13245 643561010140 Family description; Region: UvrD_C_2; pfam13538 643561010141 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 643561010142 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 643561010143 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 643561010144 putative active site [active] 643561010145 hypothetical protein; Provisional; Region: PRK07338 643561010146 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 643561010147 metal binding site [ion binding]; metal-binding site 643561010148 dimer interface [polypeptide binding]; other site 643561010149 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561010150 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 643561010151 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 643561010152 active site 643561010153 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 643561010154 SnoaL-like domain; Region: SnoaL_2; pfam12680 643561010155 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643561010156 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643561010157 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 643561010158 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561010159 active site 643561010160 phosphorylation site [posttranslational modification] 643561010161 intermolecular recognition site; other site 643561010162 dimerization interface [polypeptide binding]; other site 643561010163 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 643561010164 Walker A motif; other site 643561010165 ATP binding site [chemical binding]; other site 643561010166 Walker B motif; other site 643561010167 arginine finger; other site 643561010168 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 643561010169 PAS domain; Region: PAS_9; pfam13426 643561010170 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 643561010171 dimer interface [polypeptide binding]; other site 643561010172 phosphorylation site [posttranslational modification] 643561010173 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 643561010174 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 643561010175 ATP binding site [chemical binding]; other site 643561010176 Mg2+ binding site [ion binding]; other site 643561010177 G-X-G motif; other site 643561010178 Response regulator receiver domain; Region: Response_reg; pfam00072 643561010179 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561010180 active site 643561010181 phosphorylation site [posttranslational modification] 643561010182 intermolecular recognition site; other site 643561010183 dimerization interface [polypeptide binding]; other site 643561010184 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 643561010185 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 643561010186 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 643561010187 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 643561010188 DNA binding site [nucleotide binding] 643561010189 Ribosomal protein S26e; Region: Ribosomal_S26e; cl01993 643561010190 Protein of unknown function (DUF461); Region: DUF461; pfam04314 643561010191 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 643561010192 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 643561010193 putative substrate translocation pore; other site 643561010194 PAS domain; Region: PAS_9; pfam13426 643561010195 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 643561010196 PAS domain; Region: PAS_9; pfam13426 643561010197 putative active site [active] 643561010198 heme pocket [chemical binding]; other site 643561010199 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561010200 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561010201 metal binding site [ion binding]; metal-binding site 643561010202 active site 643561010203 I-site; other site 643561010204 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 643561010205 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 643561010206 ATP binding site [chemical binding]; other site 643561010207 Mg++ binding site [ion binding]; other site 643561010208 motif III; other site 643561010209 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 643561010210 nucleotide binding region [chemical binding]; other site 643561010211 ATP-binding site [chemical binding]; other site 643561010212 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 643561010213 catalytic site [active] 643561010214 putative active site [active] 643561010215 putative substrate binding site [chemical binding]; other site 643561010216 dimer interface [polypeptide binding]; other site 643561010217 Peptidase family M48; Region: Peptidase_M48; pfam01435 643561010218 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 643561010219 aromatic arch; other site 643561010220 DCoH dimer interaction site [polypeptide binding]; other site 643561010221 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 643561010222 DCoH tetramer interaction site [polypeptide binding]; other site 643561010223 substrate binding site [chemical binding]; other site 643561010224 GTPase RsgA; Reviewed; Region: PRK00098 643561010225 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 643561010226 RNA binding site [nucleotide binding]; other site 643561010227 homodimer interface [polypeptide binding]; other site 643561010228 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 643561010229 GTPase/Zn-binding domain interface [polypeptide binding]; other site 643561010230 GTP/Mg2+ binding site [chemical binding]; other site 643561010231 G4 box; other site 643561010232 G5 box; other site 643561010233 G1 box; other site 643561010234 Switch I region; other site 643561010235 G2 box; other site 643561010236 G3 box; other site 643561010237 Switch II region; other site 643561010238 CobD/Cbib protein; Region: CobD_Cbib; cl00561 643561010239 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 643561010240 putative active site [active] 643561010241 putative CoA binding site [chemical binding]; other site 643561010242 nudix motif; other site 643561010243 metal binding site [ion binding]; metal-binding site 643561010244 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 643561010245 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 643561010246 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 643561010247 RimM N-terminal domain; Region: RimM; pfam01782 643561010248 PRC-barrel domain; Region: PRC; pfam05239 643561010249 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 643561010250 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 643561010251 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 643561010252 Coenzyme A binding pocket [chemical binding]; other site 643561010253 TM2 domain; Region: TM2; pfam05154 643561010254 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 643561010255 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 643561010256 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 643561010257 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 643561010258 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 643561010259 Walker A/P-loop; other site 643561010260 ATP binding site [chemical binding]; other site 643561010261 Q-loop/lid; other site 643561010262 ABC transporter signature motif; other site 643561010263 Walker B; other site 643561010264 D-loop; other site 643561010265 H-loop/switch region; other site 643561010266 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 643561010267 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 643561010268 Walker A/P-loop; other site 643561010269 ATP binding site [chemical binding]; other site 643561010270 Q-loop/lid; other site 643561010271 ABC transporter signature motif; other site 643561010272 Walker B; other site 643561010273 D-loop; other site 643561010274 H-loop/switch region; other site 643561010275 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 643561010276 TM-ABC transporter signature motif; other site 643561010277 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643561010278 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 643561010279 TM-ABC transporter signature motif; other site 643561010280 recombination factor protein RarA; Reviewed; Region: PRK13342 643561010281 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 643561010282 Walker A motif; other site 643561010283 ATP binding site [chemical binding]; other site 643561010284 Walker B motif; other site 643561010285 arginine finger; other site 643561010286 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 643561010287 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 643561010288 Walker A motif; other site 643561010289 ATP binding site [chemical binding]; other site 643561010290 Walker B motif; other site 643561010291 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 643561010292 putative uracil binding site [chemical binding]; other site 643561010293 putative active site [active] 643561010294 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 643561010295 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 643561010296 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 643561010297 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 643561010298 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 643561010299 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 643561010300 thioredoxin reductase; Provisional; Region: PRK10262 643561010301 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 643561010302 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 643561010303 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 643561010304 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 643561010305 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 643561010306 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643561010307 DNA-binding site [nucleotide binding]; DNA binding site 643561010308 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 643561010309 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561010310 homodimer interface [polypeptide binding]; other site 643561010311 catalytic residue [active] 643561010312 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 643561010313 Fatty acid desaturase; Region: FA_desaturase; pfam00487 643561010314 Di-iron ligands [ion binding]; other site 643561010315 Transposase; Region: DDE_Tnp_ISL3; pfam01610 643561010316 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 643561010317 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 643561010318 S-adenosylmethionine binding site [chemical binding]; other site 643561010319 Amb_all domain; Region: Amb_all; smart00656 643561010320 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 643561010321 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 643561010322 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 643561010323 Mg2+ binding site [ion binding]; other site 643561010324 G-X-G motif; other site 643561010325 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 643561010326 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561010327 active site 643561010328 phosphorylation site [posttranslational modification] 643561010329 intermolecular recognition site; other site 643561010330 dimerization interface [polypeptide binding]; other site 643561010331 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 643561010332 DNA binding site [nucleotide binding] 643561010333 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 643561010334 Ca2+ binding site [ion binding]; other site 643561010335 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 643561010336 Ca2+ binding site [ion binding]; other site 643561010337 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 643561010338 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 643561010339 active site 643561010340 substrate binding site [chemical binding]; other site 643561010341 cosubstrate binding site; other site 643561010342 catalytic site [active] 643561010343 Protein of unknown function, DUF480; Region: DUF480; pfam04337 643561010344 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 643561010345 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 643561010346 active site 643561010347 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 643561010348 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 643561010349 active site 643561010350 Glyco_18 domain; Region: Glyco_18; smart00636 643561010351 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 643561010352 active site 643561010353 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 643561010354 TPR motif; other site 643561010355 binding surface 643561010356 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 643561010357 binding surface 643561010358 TPR motif; other site 643561010359 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 643561010360 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 643561010361 TPR motif; other site 643561010362 binding surface 643561010363 Methyltransferase domain; Region: Methyltransf_12; pfam08242 643561010364 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561010365 dimer interface [polypeptide binding]; other site 643561010366 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 643561010367 putative CheW interface [polypeptide binding]; other site 643561010368 DctM-like transporters; Region: DctM; pfam06808 643561010369 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 643561010370 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 643561010371 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 643561010372 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 643561010373 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 643561010374 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 643561010375 N-terminal plug; other site 643561010376 ligand-binding site [chemical binding]; other site 643561010377 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 643561010378 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 643561010379 active site 643561010380 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 643561010381 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 643561010382 active site 643561010383 Riboflavin kinase; Region: Flavokinase; smart00904 643561010384 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 643561010385 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 643561010386 active site 643561010387 HIGH motif; other site 643561010388 nucleotide binding site [chemical binding]; other site 643561010389 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 643561010390 active site 643561010391 KMSKS motif; other site 643561010392 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 643561010393 tRNA binding surface [nucleotide binding]; other site 643561010394 anticodon binding site; other site 643561010395 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 643561010396 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 643561010397 Transcriptional regulators [Transcription]; Region: PurR; COG1609 643561010398 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 643561010399 DNA binding site [nucleotide binding] 643561010400 domain linker motif; other site 643561010401 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_2; cd06282 643561010402 putative dimerization interface [polypeptide binding]; other site 643561010403 putative ligand binding site [chemical binding]; other site 643561010404 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 643561010405 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 643561010406 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 643561010407 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 643561010408 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561010409 dimer interface [polypeptide binding]; other site 643561010410 conserved gate region; other site 643561010411 putative PBP binding loops; other site 643561010412 ABC-ATPase subunit interface; other site 643561010413 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 643561010414 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643561010415 Walker A/P-loop; other site 643561010416 ATP binding site [chemical binding]; other site 643561010417 Q-loop/lid; other site 643561010418 ABC transporter signature motif; other site 643561010419 Walker B; other site 643561010420 D-loop; other site 643561010421 H-loop/switch region; other site 643561010422 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 643561010423 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 643561010424 active site 643561010425 metal binding site [ion binding]; metal-binding site 643561010426 hexamer interface [polypeptide binding]; other site 643561010427 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 643561010428 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 643561010429 PhoU domain; Region: PhoU; pfam01895 643561010430 PhoU domain; Region: PhoU; pfam01895 643561010431 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 643561010432 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 643561010433 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561010434 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561010435 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 643561010436 dimerization interface [polypeptide binding]; other site 643561010437 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 643561010438 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 643561010439 putative NAD(P) binding site [chemical binding]; other site 643561010440 putative substrate binding site [chemical binding]; other site 643561010441 catalytic Zn binding site [ion binding]; other site 643561010442 structural Zn binding site [ion binding]; other site 643561010443 dimer interface [polypeptide binding]; other site 643561010444 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 643561010445 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 643561010446 MarR family; Region: MarR_2; cl17246 643561010447 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 643561010448 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3473 643561010449 Predicted amidohydrolase [General function prediction only]; Region: COG0388 643561010450 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 643561010451 putative active site [active] 643561010452 catalytic triad [active] 643561010453 putative dimer interface [polypeptide binding]; other site 643561010454 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 643561010455 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 643561010456 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 643561010457 Cupin domain; Region: Cupin_2; pfam07883 643561010458 Cupin domain; Region: Cupin_2; pfam07883 643561010459 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 643561010460 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 643561010461 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 643561010462 active site 643561010463 FMN binding site [chemical binding]; other site 643561010464 substrate binding site [chemical binding]; other site 643561010465 homotetramer interface [polypeptide binding]; other site 643561010466 catalytic residue [active] 643561010467 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 643561010468 active site 643561010469 putative indolepyruvate oxidoreductase subunit B; Reviewed; Region: PRK08312 643561010470 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 643561010471 benzoate transport; Region: 2A0115; TIGR00895 643561010472 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 643561010473 putative substrate translocation pore; other site 643561010474 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 643561010475 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]; Region: COG4231 643561010476 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 643561010477 dimer interface [polypeptide binding]; other site 643561010478 PYR/PP interface [polypeptide binding]; other site 643561010479 TPP binding site [chemical binding]; other site 643561010480 substrate binding site [chemical binding]; other site 643561010481 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 643561010482 TPP-binding site; other site 643561010483 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 643561010484 Helix-turn-helix domain; Region: HTH_18; pfam12833 643561010485 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643561010486 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 643561010487 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 643561010488 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 643561010489 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 643561010490 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 643561010491 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 643561010492 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 643561010493 short chain dehydrogenase; Provisional; Region: PRK08265 643561010494 classical (c) SDRs; Region: SDR_c; cd05233 643561010495 NAD(P) binding site [chemical binding]; other site 643561010496 active site 643561010497 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 643561010498 nudix motif; other site 643561010499 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 643561010500 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 643561010501 NADP binding site [chemical binding]; other site 643561010502 dimer interface [polypeptide binding]; other site 643561010503 EamA-like transporter family; Region: EamA; pfam00892 643561010504 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 643561010505 EamA-like transporter family; Region: EamA; pfam00892 643561010506 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 643561010507 binding surface 643561010508 TPR motif; other site 643561010509 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 643561010510 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 643561010511 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 643561010512 RHS Repeat; Region: RHS_repeat; pfam05593 643561010513 RHS Repeat; Region: RHS_repeat; cl11982 643561010514 RHS Repeat; Region: RHS_repeat; cl11982 643561010515 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 643561010516 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 643561010517 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 643561010518 RHS Repeat; Region: RHS_repeat; cl11982 643561010519 RHS protein; Region: RHS; pfam03527 643561010520 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 643561010521 Deoxyribonuclease NucA/NucB; Region: DNase_NucA_NucB; pfam14040 643561010522 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 643561010523 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 643561010524 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 643561010525 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 643561010526 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 643561010527 PAS fold; Region: PAS_7; pfam12860 643561010528 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561010529 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561010530 metal binding site [ion binding]; metal-binding site 643561010531 active site 643561010532 I-site; other site 643561010533 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 643561010534 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 643561010535 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 643561010536 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 643561010537 active site 643561010538 metal binding site [ion binding]; metal-binding site 643561010539 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 643561010540 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 643561010541 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 643561010542 active site 643561010543 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 643561010544 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 643561010545 putative substrate translocation pore; other site 643561010546 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 643561010547 DNA-binding site [nucleotide binding]; DNA binding site 643561010548 RNA-binding motif; other site 643561010549 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 643561010550 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 643561010551 cyclase homology domain; Region: CHD; cd07302 643561010552 nucleotidyl binding site; other site 643561010553 metal binding site [ion binding]; metal-binding site 643561010554 dimer interface [polypeptide binding]; other site 643561010555 PilZ domain; Region: PilZ; pfam07238 643561010556 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 643561010557 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 643561010558 Walker A/P-loop; other site 643561010559 ATP binding site [chemical binding]; other site 643561010560 Q-loop/lid; other site 643561010561 ABC transporter signature motif; other site 643561010562 Walker B; other site 643561010563 D-loop; other site 643561010564 H-loop/switch region; other site 643561010565 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 643561010566 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 643561010567 Walker A/P-loop; other site 643561010568 ATP binding site [chemical binding]; other site 643561010569 Q-loop/lid; other site 643561010570 ABC transporter signature motif; other site 643561010571 Walker B; other site 643561010572 D-loop; other site 643561010573 H-loop/switch region; other site 643561010574 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 643561010575 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 643561010576 TM-ABC transporter signature motif; other site 643561010577 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 643561010578 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643561010579 TM-ABC transporter signature motif; other site 643561010580 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 643561010581 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 643561010582 putative ligand binding site [chemical binding]; other site 643561010583 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 643561010584 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 643561010585 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 643561010586 active site 643561010587 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 643561010588 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 643561010589 C-terminal domain interface [polypeptide binding]; other site 643561010590 GSH binding site (G-site) [chemical binding]; other site 643561010591 dimer interface [polypeptide binding]; other site 643561010592 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 643561010593 dimer interface [polypeptide binding]; other site 643561010594 N-terminal domain interface [polypeptide binding]; other site 643561010595 putative substrate binding pocket (H-site) [chemical binding]; other site 643561010596 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 643561010597 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 643561010598 putative DNA binding site [nucleotide binding]; other site 643561010599 putative Zn2+ binding site [ion binding]; other site 643561010600 AsnC family; Region: AsnC_trans_reg; pfam01037 643561010601 Uncharacterized conserved protein [Function unknown]; Region: COG2353 643561010602 YceI-like domain; Region: YceI; smart00867 643561010603 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 643561010604 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 643561010605 Transcriptional regulator [Transcription]; Region: IclR; COG1414 643561010606 Bacterial transcriptional regulator; Region: IclR; pfam01614 643561010607 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561010608 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 643561010609 CoA-transferase family III; Region: CoA_transf_3; pfam02515 643561010610 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 643561010611 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 643561010612 active site 643561010613 oxalacetate binding site [chemical binding]; other site 643561010614 citrylCoA binding site [chemical binding]; other site 643561010615 coenzyme A binding site [chemical binding]; other site 643561010616 catalytic triad [active] 643561010617 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 643561010618 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 643561010619 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 643561010620 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 643561010621 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 643561010622 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 643561010623 carboxyltransferase (CT) interaction site; other site 643561010624 biotinylation site [posttranslational modification]; other site 643561010625 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 643561010626 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 643561010627 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 643561010628 hypothetical protein; Provisional; Region: PRK05463 643561010629 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 643561010630 putative active site [active] 643561010631 benzoate transport; Region: 2A0115; TIGR00895 643561010632 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 643561010633 putative substrate translocation pore; other site 643561010634 Transcriptional regulators [Transcription]; Region: GntR; COG1802 643561010635 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643561010636 DNA-binding site [nucleotide binding]; DNA binding site 643561010637 FCD domain; Region: FCD; pfam07729 643561010638 Protein of unknown function (DUF3334); Region: DUF3334; pfam11813 643561010639 nickel responsive regulator; Provisional; Region: PRK02967 643561010640 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 643561010641 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 643561010642 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 643561010643 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 643561010644 N-terminal plug; other site 643561010645 ligand-binding site [chemical binding]; other site 643561010646 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 643561010647 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 643561010648 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 643561010649 phosphate binding site [ion binding]; other site 643561010650 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 643561010651 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643561010652 DNA-binding site [nucleotide binding]; DNA binding site 643561010653 FCD domain; Region: FCD; pfam07729 643561010654 L-lactate permease; Provisional; Region: PRK10420 643561010655 glycolate transporter; Provisional; Region: PRK09695 643561010656 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 643561010657 CHASE4 domain; Region: CHASE4; pfam05228 643561010658 PAS domain S-box; Region: sensory_box; TIGR00229 643561010659 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 643561010660 putative active site [active] 643561010661 heme pocket [chemical binding]; other site 643561010662 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561010663 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561010664 metal binding site [ion binding]; metal-binding site 643561010665 active site 643561010666 I-site; other site 643561010667 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 643561010668 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561010669 active site 643561010670 phosphorylation site [posttranslational modification] 643561010671 intermolecular recognition site; other site 643561010672 dimerization interface [polypeptide binding]; other site 643561010673 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 643561010674 DNA binding residues [nucleotide binding] 643561010675 dimerization interface [polypeptide binding]; other site 643561010676 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 643561010677 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643561010678 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 643561010679 dimer interface [polypeptide binding]; other site 643561010680 phosphorylation site [posttranslational modification] 643561010681 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 643561010682 ATP binding site [chemical binding]; other site 643561010683 Mg2+ binding site [ion binding]; other site 643561010684 G-X-G motif; other site 643561010685 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 643561010686 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561010687 active site 643561010688 phosphorylation site [posttranslational modification] 643561010689 intermolecular recognition site; other site 643561010690 dimerization interface [polypeptide binding]; other site 643561010691 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 643561010692 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 643561010693 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 643561010694 active site 643561010695 metal binding site [ion binding]; metal-binding site 643561010696 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 643561010697 alpha-gamma subunit interface [polypeptide binding]; other site 643561010698 beta-gamma subunit interface [polypeptide binding]; other site 643561010699 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 643561010700 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 643561010701 gamma-beta subunit interface [polypeptide binding]; other site 643561010702 alpha-beta subunit interface [polypeptide binding]; other site 643561010703 urease subunit alpha; Reviewed; Region: ureC; PRK13207 643561010704 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 643561010705 subunit interactions [polypeptide binding]; other site 643561010706 active site 643561010707 flap region; other site 643561010708 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 643561010709 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 643561010710 dimer interface [polypeptide binding]; other site 643561010711 catalytic residues [active] 643561010712 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 643561010713 UreF; Region: UreF; pfam01730 643561010714 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 643561010715 G1 box; other site 643561010716 GTP/Mg2+ binding site [chemical binding]; other site 643561010717 G2 box; other site 643561010718 Switch I region; other site 643561010719 G3 box; other site 643561010720 Switch II region; other site 643561010721 G4 box; other site 643561010722 G5 box; other site 643561010723 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 643561010724 FRG domain; Region: FRG; pfam08867 643561010725 Predicted ester cyclase [General function prediction only]; Region: COG5485 643561010726 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 643561010727 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 643561010728 Walker A/P-loop; other site 643561010729 ATP binding site [chemical binding]; other site 643561010730 Q-loop/lid; other site 643561010731 ABC transporter signature motif; other site 643561010732 Walker B; other site 643561010733 D-loop; other site 643561010734 H-loop/switch region; other site 643561010735 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 643561010736 Walker A/P-loop; other site 643561010737 ATP binding site [chemical binding]; other site 643561010738 Q-loop/lid; other site 643561010739 ABC transporter signature motif; other site 643561010740 Walker B; other site 643561010741 D-loop; other site 643561010742 H-loop/switch region; other site 643561010743 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 643561010744 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 643561010745 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561010746 dimer interface [polypeptide binding]; other site 643561010747 conserved gate region; other site 643561010748 putative PBP binding loops; other site 643561010749 ABC-ATPase subunit interface; other site 643561010750 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 643561010751 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561010752 putative PBP binding loops; other site 643561010753 dimer interface [polypeptide binding]; other site 643561010754 ABC-ATPase subunit interface; other site 643561010755 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 643561010756 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 643561010757 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 643561010758 Transcriptional regulators [Transcription]; Region: FadR; COG2186 643561010759 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643561010760 DNA-binding site [nucleotide binding]; DNA binding site 643561010761 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 643561010762 DNA-binding site [nucleotide binding]; DNA binding site 643561010763 FCD domain; Region: FCD; pfam07729 643561010764 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 643561010765 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 643561010766 inhibitor-cofactor binding pocket; inhibition site 643561010767 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561010768 catalytic residue [active] 643561010769 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643561010770 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643561010771 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 643561010772 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 643561010773 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 643561010774 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 643561010775 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 643561010776 putative NAD(P) binding site [chemical binding]; other site 643561010777 catalytic Zn binding site [ion binding]; other site 643561010778 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 643561010779 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 643561010780 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 643561010781 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 643561010782 Walker A motif; other site 643561010783 ATP binding site [chemical binding]; other site 643561010784 Walker B motif; other site 643561010785 arginine finger; other site 643561010786 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 643561010787 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 643561010788 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 643561010789 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561010790 dimer interface [polypeptide binding]; other site 643561010791 putative CheW interface [polypeptide binding]; other site 643561010792 Response regulator receiver domain; Region: Response_reg; pfam00072 643561010793 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561010794 active site 643561010795 phosphorylation site [posttranslational modification] 643561010796 intermolecular recognition site; other site 643561010797 dimerization interface [polypeptide binding]; other site 643561010798 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 643561010799 anti sigma factor interaction site; other site 643561010800 regulatory phosphorylation site [posttranslational modification]; other site 643561010801 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 643561010802 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 643561010803 putative binding surface; other site 643561010804 active site 643561010805 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 643561010806 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 643561010807 ATP binding site [chemical binding]; other site 643561010808 Mg2+ binding site [ion binding]; other site 643561010809 G-X-G motif; other site 643561010810 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 643561010811 CHASE3 domain; Region: CHASE3; pfam05227 643561010812 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 643561010813 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561010814 dimer interface [polypeptide binding]; other site 643561010815 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 643561010816 putative CheW interface [polypeptide binding]; other site 643561010817 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 643561010818 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 643561010819 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561010820 dimer interface [polypeptide binding]; other site 643561010821 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 643561010822 putative CheW interface [polypeptide binding]; other site 643561010823 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 643561010824 putative CheA interaction surface; other site 643561010825 Response regulator receiver domain; Region: Response_reg; pfam00072 643561010826 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561010827 active site 643561010828 phosphorylation site [posttranslational modification] 643561010829 intermolecular recognition site; other site 643561010830 dimerization interface [polypeptide binding]; other site 643561010831 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 643561010832 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 643561010833 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 643561010834 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 643561010835 CheD chemotactic sensory transduction; Region: CheD; cl00810 643561010836 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 643561010837 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561010838 active site 643561010839 phosphorylation site [posttranslational modification] 643561010840 intermolecular recognition site; other site 643561010841 dimerization interface [polypeptide binding]; other site 643561010842 CheB methylesterase; Region: CheB_methylest; pfam01339 643561010843 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 643561010844 Type II transport protein GspH; Region: GspH; pfam12019 643561010845 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 643561010846 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 643561010847 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 643561010848 PilX N-terminal; Region: PilX_N; pfam14341 643561010849 Type IV pilus assembly protein PilX C-term; Region: PilX; pfam13681 643561010850 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 643561010851 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 643561010852 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 643561010853 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 643561010854 catalytic motif [active] 643561010855 Zn binding site [ion binding]; other site 643561010856 RibD C-terminal domain; Region: RibD_C; cl17279 643561010857 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 643561010858 Predicted membrane protein (DUF2243); Region: DUF2243; pfam10002 643561010859 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 643561010860 Isochorismatase family; Region: Isochorismatase; pfam00857 643561010861 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; cd00431 643561010862 catalytic triad [active] 643561010863 conserved cis-peptide bond; other site 643561010864 Predicted membrane protein [Function unknown]; Region: COG2323 643561010865 histidine kinase; Provisional; Region: PRK13557 643561010866 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 643561010867 putative active site [active] 643561010868 heme pocket [chemical binding]; other site 643561010869 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 643561010870 dimer interface [polypeptide binding]; other site 643561010871 phosphorylation site [posttranslational modification] 643561010872 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 643561010873 ATP binding site [chemical binding]; other site 643561010874 Mg2+ binding site [ion binding]; other site 643561010875 G-X-G motif; other site 643561010876 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561010877 active site 643561010878 phosphorylation site [posttranslational modification] 643561010879 intermolecular recognition site; other site 643561010880 dimerization interface [polypeptide binding]; other site 643561010881 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 643561010882 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 643561010883 S-adenosylmethionine binding site [chemical binding]; other site 643561010884 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 643561010885 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 643561010886 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 643561010887 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 643561010888 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 643561010889 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 643561010890 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 643561010891 DNA binding residues [nucleotide binding] 643561010892 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 643561010893 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 643561010894 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 643561010895 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 643561010896 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 643561010897 S-adenosylmethionine binding site [chemical binding]; other site 643561010898 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 643561010899 classical (c) SDRs; Region: SDR_c; cd05233 643561010900 NAD(P) binding site [chemical binding]; other site 643561010901 active site 643561010902 Sporulation related domain; Region: SPOR; cl10051 643561010903 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 643561010904 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 643561010905 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 643561010906 FeS/SAM binding site; other site 643561010907 HemN C-terminal domain; Region: HemN_C; pfam06969 643561010908 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 643561010909 active site 643561010910 dimerization interface [polypeptide binding]; other site 643561010911 ribonuclease PH; Reviewed; Region: rph; PRK00173 643561010912 Ribonuclease PH; Region: RNase_PH_bact; cd11362 643561010913 hexamer interface [polypeptide binding]; other site 643561010914 active site 643561010915 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 643561010916 Protein phosphatase 2C; Region: PP2C; pfam00481 643561010917 active site 643561010918 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 643561010919 Catalytic domain of Protein Kinases; Region: PKc; cd00180 643561010920 active site 643561010921 ATP binding site [chemical binding]; other site 643561010922 substrate binding site [chemical binding]; other site 643561010923 activation loop (A-loop); other site 643561010924 hypothetical protein; Provisional; Region: PRK11820 643561010925 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 643561010926 MraW methylase family; Region: Methyltransf_5; cl17771 643561010927 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 643561010928 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 643561010929 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 643561010930 catalytic site [active] 643561010931 G-X2-G-X-G-K; other site 643561010932 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 643561010933 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 643561010934 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643561010935 Zn2+ binding site [ion binding]; other site 643561010936 Mg2+ binding site [ion binding]; other site 643561010937 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 643561010938 synthetase active site [active] 643561010939 NTP binding site [chemical binding]; other site 643561010940 metal binding site [ion binding]; metal-binding site 643561010941 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 643561010942 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 643561010943 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 643561010944 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 643561010945 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 643561010946 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 643561010947 catalytic residues [active] 643561010948 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 643561010949 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 643561010950 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 643561010951 Phage tail protein; Region: Phage_tail_3; pfam08813 643561010952 Predicted transcriptional regulator [Transcription]; Region: COG2932 643561010953 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 643561010954 Catalytic site [active] 643561010955 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 643561010956 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561010957 active site 643561010958 phosphorylation site [posttranslational modification] 643561010959 intermolecular recognition site; other site 643561010960 dimerization interface [polypeptide binding]; other site 643561010961 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 643561010962 DNA binding residues [nucleotide binding] 643561010963 dimerization interface [polypeptide binding]; other site 643561010964 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 643561010965 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 643561010966 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 643561010967 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 643561010968 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 643561010969 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 643561010970 Walker A/P-loop; other site 643561010971 ATP binding site [chemical binding]; other site 643561010972 Q-loop/lid; other site 643561010973 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 643561010974 ABC transporter signature motif; other site 643561010975 Walker B; other site 643561010976 D-loop; other site 643561010977 H-loop/switch region; other site 643561010978 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 643561010979 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 643561010980 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 643561010981 minor groove reading motif; other site 643561010982 helix-hairpin-helix signature motif; other site 643561010983 substrate binding pocket [chemical binding]; other site 643561010984 active site 643561010985 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 643561010986 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 643561010987 DNA binding and oxoG recognition site [nucleotide binding] 643561010988 Dynamin family; Region: Dynamin_N; pfam00350 643561010989 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 643561010990 G1 box; other site 643561010991 GTP/Mg2+ binding site [chemical binding]; other site 643561010992 G2 box; other site 643561010993 Switch I region; other site 643561010994 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 643561010995 G3 box; other site 643561010996 Switch II region; other site 643561010997 GTP/Mg2+ binding site [chemical binding]; other site 643561010998 G4 box; other site 643561010999 G5 box; other site 643561011000 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 643561011001 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 643561011002 DNA binding site [nucleotide binding] 643561011003 catalytic residue [active] 643561011004 H2TH interface [polypeptide binding]; other site 643561011005 putative catalytic residues [active] 643561011006 turnover-facilitating residue; other site 643561011007 intercalation triad [nucleotide binding]; other site 643561011008 8OG recognition residue [nucleotide binding]; other site 643561011009 putative reading head residues; other site 643561011010 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 643561011011 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 643561011012 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 643561011013 binding surface 643561011014 TPR motif; other site 643561011015 TPR repeat; Region: TPR_11; pfam13414 643561011016 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 643561011017 binding surface 643561011018 TPR motif; other site 643561011019 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 643561011020 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 643561011021 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 643561011022 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 643561011023 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 643561011024 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 643561011025 active site 643561011026 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 643561011027 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 643561011028 5S rRNA interface [nucleotide binding]; other site 643561011029 CTC domain interface [polypeptide binding]; other site 643561011030 L16 interface [polypeptide binding]; other site 643561011031 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 643561011032 putative active site [active] 643561011033 catalytic residue [active] 643561011034 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 643561011035 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 643561011036 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561011037 dimer interface [polypeptide binding]; other site 643561011038 conserved gate region; other site 643561011039 putative PBP binding loops; other site 643561011040 ABC-ATPase subunit interface; other site 643561011041 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 643561011042 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561011043 dimer interface [polypeptide binding]; other site 643561011044 conserved gate region; other site 643561011045 putative PBP binding loops; other site 643561011046 ABC-ATPase subunit interface; other site 643561011047 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 643561011048 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 643561011049 Walker A/P-loop; other site 643561011050 ATP binding site [chemical binding]; other site 643561011051 Q-loop/lid; other site 643561011052 ABC transporter signature motif; other site 643561011053 Walker B; other site 643561011054 D-loop; other site 643561011055 H-loop/switch region; other site 643561011056 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 643561011057 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 643561011058 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 643561011059 Walker A/P-loop; other site 643561011060 ATP binding site [chemical binding]; other site 643561011061 Q-loop/lid; other site 643561011062 ABC transporter signature motif; other site 643561011063 Walker B; other site 643561011064 D-loop; other site 643561011065 H-loop/switch region; other site 643561011066 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 643561011067 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 643561011068 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 643561011069 non-specific DNA binding site [nucleotide binding]; other site 643561011070 salt bridge; other site 643561011071 sequence-specific DNA binding site [nucleotide binding]; other site 643561011072 HipA N-terminal domain; Region: Couple_hipA; cl11853 643561011073 HipA-like N-terminal domain; Region: HipA_N; pfam07805 643561011074 HipA-like C-terminal domain; Region: HipA_C; pfam07804 643561011075 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 643561011076 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 643561011077 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09775 643561011078 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 643561011079 putative DNA binding site [nucleotide binding]; other site 643561011080 putative Zn2+ binding site [ion binding]; other site 643561011081 HipA-like N-terminal domain; Region: HipA_N; pfam07805 643561011082 HipA-like C-terminal domain; Region: HipA_C; pfam07804 643561011083 succinic semialdehyde dehydrogenase; Region: PLN02278 643561011084 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 643561011085 tetramerization interface [polypeptide binding]; other site 643561011086 NAD(P) binding site [chemical binding]; other site 643561011087 catalytic residues [active] 643561011088 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 643561011089 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 643561011090 active site 643561011091 tetramer interface [polypeptide binding]; other site 643561011092 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561011093 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 643561011094 Transposase; Region: DEDD_Tnp_IS110; pfam01548 643561011095 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 643561011096 Transcriptional regulators [Transcription]; Region: PurR; COG1609 643561011097 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 643561011098 DNA binding site [nucleotide binding] 643561011099 domain linker motif; other site 643561011100 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 643561011101 putative dimerization interface [polypeptide binding]; other site 643561011102 putative ligand binding site [chemical binding]; other site 643561011103 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 643561011104 active site 643561011105 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 643561011106 Sensors of blue-light using FAD; Region: BLUF; smart01034 643561011107 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 643561011108 active site 643561011109 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 643561011110 PLD-like domain; Region: PLDc_2; pfam13091 643561011111 putative active site [active] 643561011112 catalytic site [active] 643561011113 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 643561011114 PLD-like domain; Region: PLDc_2; pfam13091 643561011115 putative active site [active] 643561011116 catalytic site [active] 643561011117 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 643561011118 putative catalytic site [active] 643561011119 putative metal binding site [ion binding]; other site 643561011120 putative phosphate binding site [ion binding]; other site 643561011121 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561011122 Response regulator receiver domain; Region: Response_reg; pfam00072 643561011123 active site 643561011124 phosphorylation site [posttranslational modification] 643561011125 intermolecular recognition site; other site 643561011126 dimerization interface [polypeptide binding]; other site 643561011127 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 643561011128 binding surface 643561011129 TPR motif; other site 643561011130 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 643561011131 TPR motif; other site 643561011132 binding surface 643561011133 dihydroneopterin triphosphate pyrophosphatase; Provisional; Region: nudB; PRK09438 643561011134 CheW-like domain; Region: CheW; pfam01584 643561011135 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 643561011136 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 643561011137 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 643561011138 dimer interface [polypeptide binding]; other site 643561011139 anticodon binding site; other site 643561011140 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 643561011141 homodimer interface [polypeptide binding]; other site 643561011142 motif 1; other site 643561011143 active site 643561011144 motif 2; other site 643561011145 GAD domain; Region: GAD; pfam02938 643561011146 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 643561011147 motif 3; other site 643561011148 Uncharacterized conserved protein [Function unknown]; Region: COG2928 643561011149 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 643561011150 Na(+)- and Cl(-)-dependent choline cotransporter CHT and related proteins; solute-binding domain; Region: SLC5sbd_CHT; cd11474 643561011151 Na binding site [ion binding]; other site 643561011152 putative glycosylation site [posttranslational modification]; other site 643561011153 putative glycosylation site [posttranslational modification]; other site 643561011154 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 643561011155 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 643561011156 SCP-2 sterol transfer family; Region: SCP2; pfam02036 643561011157 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 643561011158 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 643561011159 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 643561011160 S-adenosylmethionine binding site [chemical binding]; other site 643561011161 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 643561011162 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561011163 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561011164 metal binding site [ion binding]; metal-binding site 643561011165 active site 643561011166 I-site; other site 643561011167 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 643561011168 nucleotide binding site/active site [active] 643561011169 HIT family signature motif; other site 643561011170 catalytic residue [active] 643561011171 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 643561011172 FAD binding domain; Region: FAD_binding_4; pfam01565 643561011173 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 643561011174 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 643561011175 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 643561011176 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 643561011177 Cysteine-rich domain; Region: CCG; pfam02754 643561011178 Cysteine-rich domain; Region: CCG; pfam02754 643561011179 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 643561011180 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 643561011181 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 643561011182 dimerization interface [polypeptide binding]; other site 643561011183 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561011184 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561011185 dimer interface [polypeptide binding]; other site 643561011186 putative CheW interface [polypeptide binding]; other site 643561011187 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 643561011188 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 643561011189 ligand binding site [chemical binding]; other site 643561011190 NAD binding site [chemical binding]; other site 643561011191 tetramer interface [polypeptide binding]; other site 643561011192 catalytic site [active] 643561011193 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 643561011194 L-serine binding site [chemical binding]; other site 643561011195 ACT domain interface; other site 643561011196 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 643561011197 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 643561011198 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 643561011199 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561011200 dimer interface [polypeptide binding]; other site 643561011201 conserved gate region; other site 643561011202 putative PBP binding loops; other site 643561011203 ABC-ATPase subunit interface; other site 643561011204 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 643561011205 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561011206 dimer interface [polypeptide binding]; other site 643561011207 conserved gate region; other site 643561011208 putative PBP binding loops; other site 643561011209 ABC-ATPase subunit interface; other site 643561011210 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 643561011211 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 643561011212 Walker A/P-loop; other site 643561011213 ATP binding site [chemical binding]; other site 643561011214 Q-loop/lid; other site 643561011215 ABC transporter signature motif; other site 643561011216 Walker B; other site 643561011217 D-loop; other site 643561011218 H-loop/switch region; other site 643561011219 TOBE domain; Region: TOBE_2; pfam08402 643561011220 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 643561011221 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 643561011222 active site 643561011223 metal binding site [ion binding]; metal-binding site 643561011224 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 643561011225 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 643561011226 active site 643561011227 catalytic site [active] 643561011228 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 643561011229 Tar ligand binding domain homologue; Region: TarH; pfam02203 643561011230 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561011231 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561011232 dimer interface [polypeptide binding]; other site 643561011233 putative CheW interface [polypeptide binding]; other site 643561011234 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 643561011235 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 643561011236 Mechanosensitive ion channel; Region: MS_channel; pfam00924 643561011237 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561011238 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561011239 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561011240 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 643561011241 dimerization interface [polypeptide binding]; other site 643561011242 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 643561011243 putative substrate translocation pore; other site 643561011244 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 643561011245 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 643561011246 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 643561011247 tRNA; other site 643561011248 putative tRNA binding site [nucleotide binding]; other site 643561011249 putative NADP binding site [chemical binding]; other site 643561011250 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 643561011251 peptide chain release factor 1; Validated; Region: prfA; PRK00591 643561011252 This domain is found in peptide chain release factors; Region: PCRF; smart00937 643561011253 RF-1 domain; Region: RF-1; pfam00472 643561011254 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 643561011255 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 643561011256 S-adenosylmethionine binding site [chemical binding]; other site 643561011257 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 643561011258 putative GSH binding site [chemical binding]; other site 643561011259 catalytic residues [active] 643561011260 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 643561011261 Walker A motif; other site 643561011262 ATP binding site [chemical binding]; other site 643561011263 Walker B motif; other site 643561011264 arginine finger; other site 643561011265 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 643561011266 Domain of unknown function DUF21; Region: DUF21; pfam01595 643561011267 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 643561011268 Transporter associated domain; Region: CorC_HlyC; smart01091 643561011269 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 643561011270 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 643561011271 N-acetyl-D-glucosamine binding site [chemical binding]; other site 643561011272 catalytic residue [active] 643561011273 prolyl-tRNA synthetase; Provisional; Region: PRK09194 643561011274 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 643561011275 dimer interface [polypeptide binding]; other site 643561011276 motif 1; other site 643561011277 active site 643561011278 motif 2; other site 643561011279 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 643561011280 putative deacylase active site [active] 643561011281 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 643561011282 active site 643561011283 motif 3; other site 643561011284 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 643561011285 anticodon binding site; other site 643561011286 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 643561011287 putative active site [active] 643561011288 Ap4A binding site [chemical binding]; other site 643561011289 nudix motif; other site 643561011290 putative metal binding site [ion binding]; other site 643561011291 gamma-glutamyl kinase; Provisional; Region: PRK05429 643561011292 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 643561011293 nucleotide binding site [chemical binding]; other site 643561011294 homotetrameric interface [polypeptide binding]; other site 643561011295 putative phosphate binding site [ion binding]; other site 643561011296 putative allosteric binding site; other site 643561011297 PUA domain; Region: PUA; pfam01472 643561011298 GTPase CgtA; Reviewed; Region: obgE; PRK12299 643561011299 GTP1/OBG; Region: GTP1_OBG; pfam01018 643561011300 Obg GTPase; Region: Obg; cd01898 643561011301 G1 box; other site 643561011302 GTP/Mg2+ binding site [chemical binding]; other site 643561011303 Switch I region; other site 643561011304 G2 box; other site 643561011305 G3 box; other site 643561011306 Switch II region; other site 643561011307 G4 box; other site 643561011308 G5 box; other site 643561011309 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 643561011310 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 643561011311 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 643561011312 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 643561011313 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 643561011314 substrate binding pocket [chemical binding]; other site 643561011315 chain length determination region; other site 643561011316 substrate-Mg2+ binding site; other site 643561011317 catalytic residues [active] 643561011318 aspartate-rich region 1; other site 643561011319 active site lid residues [active] 643561011320 aspartate-rich region 2; other site 643561011321 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 643561011322 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 643561011323 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 643561011324 Walker A motif; other site 643561011325 ATP binding site [chemical binding]; other site 643561011326 Walker B motif; other site 643561011327 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 643561011328 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 643561011329 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 643561011330 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 643561011331 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 643561011332 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 643561011333 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 643561011334 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 643561011335 CoA-binding site [chemical binding]; other site 643561011336 ATP-binding [chemical binding]; other site 643561011337 hypothetical protein; Provisional; Region: PRK05287 643561011338 Domain of unknown function (DUF329); Region: DUF329; pfam03884 643561011339 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 643561011340 active site 643561011341 8-oxo-dGMP binding site [chemical binding]; other site 643561011342 nudix motif; other site 643561011343 metal binding site [ion binding]; metal-binding site 643561011344 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 643561011345 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 643561011346 Walker A motif; other site 643561011347 ATP binding site [chemical binding]; other site 643561011348 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 643561011349 heterotetramer interface [polypeptide binding]; other site 643561011350 active site pocket [active] 643561011351 cleavage site 643561011352 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 643561011353 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 643561011354 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; cl17351 643561011355 nucleotide binding region [chemical binding]; other site 643561011356 SEC-C motif; Region: SEC-C; pfam02810 643561011357 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 643561011358 Peptidase family M23; Region: Peptidase_M23; pfam01551 643561011359 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 643561011360 stringent starvation protein A; Provisional; Region: sspA; PRK09481 643561011361 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 643561011362 C-terminal domain interface [polypeptide binding]; other site 643561011363 putative GSH binding site (G-site) [chemical binding]; other site 643561011364 dimer interface [polypeptide binding]; other site 643561011365 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 643561011366 dimer interface [polypeptide binding]; other site 643561011367 N-terminal domain interface [polypeptide binding]; other site 643561011368 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 643561011369 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 643561011370 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 643561011371 Qi binding site; other site 643561011372 intrachain domain interface; other site 643561011373 interchain domain interface [polypeptide binding]; other site 643561011374 heme bH binding site [chemical binding]; other site 643561011375 heme bL binding site [chemical binding]; other site 643561011376 Qo binding site; other site 643561011377 interchain domain interface [polypeptide binding]; other site 643561011378 intrachain domain interface; other site 643561011379 Qi binding site; other site 643561011380 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 643561011381 Qo binding site; other site 643561011382 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 643561011383 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 643561011384 [2Fe-2S] cluster binding site [ion binding]; other site 643561011385 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 643561011386 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 643561011387 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 643561011388 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 643561011389 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 643561011390 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 643561011391 Walker A/P-loop; other site 643561011392 ATP binding site [chemical binding]; other site 643561011393 Q-loop/lid; other site 643561011394 ABC transporter signature motif; other site 643561011395 Walker B; other site 643561011396 D-loop; other site 643561011397 H-loop/switch region; other site 643561011398 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 643561011399 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 643561011400 FtsX-like permease family; Region: FtsX; pfam02687 643561011401 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 643561011402 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 643561011403 DHH family; Region: DHH; pfam01368 643561011404 DHHA1 domain; Region: DHHA1; pfam02272 643561011405 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 643561011406 dimerization interface [polypeptide binding]; other site 643561011407 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561011408 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561011409 dimer interface [polypeptide binding]; other site 643561011410 putative CheW interface [polypeptide binding]; other site 643561011411 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 643561011412 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 643561011413 active site 643561011414 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 643561011415 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 643561011416 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561011417 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561011418 dimer interface [polypeptide binding]; other site 643561011419 putative CheW interface [polypeptide binding]; other site 643561011420 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 643561011421 Peptidase family M50; Region: Peptidase_M50; pfam02163 643561011422 active site 643561011423 putative substrate binding region [chemical binding]; other site 643561011424 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 643561011425 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 643561011426 active site 643561011427 HIGH motif; other site 643561011428 dimer interface [polypeptide binding]; other site 643561011429 KMSKS motif; other site 643561011430 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 643561011431 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 643561011432 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 643561011433 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 643561011434 ArsC family; Region: ArsC; pfam03960 643561011435 catalytic residues [active] 643561011436 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 643561011437 dimerization interface [polypeptide binding]; other site 643561011438 putative DNA binding site [nucleotide binding]; other site 643561011439 putative Zn2+ binding site [ion binding]; other site 643561011440 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 643561011441 RHS Repeat; Region: RHS_repeat; pfam05593 643561011442 RHS Repeat; Region: RHS_repeat; pfam05593 643561011443 RHS Repeat; Region: RHS_repeat; cl11982 643561011444 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 643561011445 RHS Repeat; Region: RHS_repeat; pfam05593 643561011446 RHS protein; Region: RHS; pfam03527 643561011447 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 643561011448 Piwi_piwi-like_ProArk: PIWI domain, Piwi-like subfamily found in Archaea and Bacteria. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs; Region: Piwi_piwi-like_ProArk; cd04659 643561011449 5' RNA guide strand anchoring site; other site 643561011450 active site 643561011451 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 643561011452 SIR2-like domain; Region: SIR2_2; pfam13289 643561011453 AAA domain; Region: AAA_18; pfam13238 643561011454 AAA domain; Region: AAA_17; cl17253 643561011455 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 643561011456 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 643561011457 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 643561011458 inhibitor-cofactor binding pocket; inhibition site 643561011459 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561011460 catalytic residue [active] 643561011461 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 643561011462 active site 643561011463 iron coordination sites [ion binding]; other site 643561011464 substrate binding pocket [chemical binding]; other site 643561011465 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 643561011466 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 643561011467 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 643561011468 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 643561011469 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 643561011470 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 643561011471 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 643561011472 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 643561011473 Walker A/P-loop; other site 643561011474 ATP binding site [chemical binding]; other site 643561011475 Q-loop/lid; other site 643561011476 ABC transporter signature motif; other site 643561011477 Walker B; other site 643561011478 D-loop; other site 643561011479 H-loop/switch region; other site 643561011480 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 643561011481 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 643561011482 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 643561011483 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 643561011484 catalytic site [active] 643561011485 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 643561011486 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 643561011487 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 643561011488 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 643561011489 N-terminal plug; other site 643561011490 ligand-binding site [chemical binding]; other site 643561011491 Condensation domain; Region: Condensation; pfam00668 643561011492 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 643561011493 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 643561011494 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 643561011495 acyl-activating enzyme (AAE) consensus motif; other site 643561011496 AMP binding site [chemical binding]; other site 643561011497 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 643561011498 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 643561011499 Condensation domain; Region: Condensation; pfam00668 643561011500 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 643561011501 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 643561011502 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 643561011503 acyl-activating enzyme (AAE) consensus motif; other site 643561011504 AMP binding site [chemical binding]; other site 643561011505 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 643561011506 Condensation domain; Region: Condensation; pfam00668 643561011507 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 643561011508 Condensation domain; Region: Condensation; pfam00668 643561011509 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 643561011510 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 643561011511 acyl-activating enzyme (AAE) consensus motif; other site 643561011512 AMP binding site [chemical binding]; other site 643561011513 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 643561011514 Condensation domain; Region: Condensation; pfam00668 643561011515 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 643561011516 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 643561011517 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 643561011518 acyl-activating enzyme (AAE) consensus motif; other site 643561011519 AMP binding site [chemical binding]; other site 643561011520 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 643561011521 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 643561011522 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 643561011523 active site 643561011524 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 643561011525 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 643561011526 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 643561011527 putative NADP binding site [chemical binding]; other site 643561011528 KR domain; Region: KR; pfam08659 643561011529 active site 643561011530 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 643561011531 acyl-CoA synthetase; Validated; Region: PRK05850 643561011532 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 643561011533 acyl-activating enzyme (AAE) consensus motif; other site 643561011534 active site 643561011535 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 643561011536 Condensation domain; Region: Condensation; pfam00668 643561011537 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 643561011538 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 643561011539 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 643561011540 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 643561011541 acyl-activating enzyme (AAE) consensus motif; other site 643561011542 AMP binding site [chemical binding]; other site 643561011543 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 643561011544 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 643561011545 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 643561011546 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 643561011547 MbtH-like protein; Region: MbtH; cl01279 643561011548 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 643561011549 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 643561011550 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 643561011551 DNA binding residues [nucleotide binding] 643561011552 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 643561011553 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 643561011554 active site 643561011555 nucleophile elbow; other site 643561011556 Patatin phospholipase; Region: DUF3734; pfam12536 643561011557 acetoacetate decarboxylase; Provisional; Region: PRK02265 643561011558 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 643561011559 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643561011560 NAD(P) binding site [chemical binding]; other site 643561011561 active site 643561011562 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 643561011563 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 643561011564 trimer interface [polypeptide binding]; other site 643561011565 eyelet of channel; other site 643561011566 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561011567 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 643561011568 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 643561011569 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 643561011570 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 643561011571 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 643561011572 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 643561011573 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 643561011574 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 643561011575 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 643561011576 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 643561011577 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561011578 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561011579 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 643561011580 putative dimerization interface [polypeptide binding]; other site 643561011581 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 643561011582 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 643561011583 DNA binding residues [nucleotide binding] 643561011584 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 643561011585 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 643561011586 nucleotide binding site [chemical binding]; other site 643561011587 putative NEF/HSP70 interaction site [polypeptide binding]; other site 643561011588 SBD interface [polypeptide binding]; other site 643561011589 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 643561011590 nucleotide binding site [chemical binding]; other site 643561011591 putative NEF/HSP70 interaction site [polypeptide binding]; other site 643561011592 SBD interface [polypeptide binding]; other site 643561011593 DNA-K related protein; Region: DUF3731; pfam12531 643561011594 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 643561011595 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 643561011596 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 643561011597 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 643561011598 Cl- selectivity filter; other site 643561011599 Cl- binding residues [ion binding]; other site 643561011600 pore gating glutamate residue; other site 643561011601 dimer interface [polypeptide binding]; other site 643561011602 PAAR motif; Region: PAAR_motif; cl15808 643561011603 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 643561011604 RHS Repeat; Region: RHS_repeat; pfam05593 643561011605 RHS Repeat; Region: RHS_repeat; pfam05593 643561011606 RHS Repeat; Region: RHS_repeat; pfam05593 643561011607 RHS protein; Region: RHS; pfam03527 643561011608 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 643561011609 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 643561011610 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 643561011611 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 643561011612 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 643561011613 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 643561011614 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 643561011615 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 643561011616 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 643561011617 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561011618 dimer interface [polypeptide binding]; other site 643561011619 conserved gate region; other site 643561011620 putative PBP binding loops; other site 643561011621 ABC-ATPase subunit interface; other site 643561011622 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561011623 dimer interface [polypeptide binding]; other site 643561011624 conserved gate region; other site 643561011625 putative PBP binding loops; other site 643561011626 ABC-ATPase subunit interface; other site 643561011627 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643561011628 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 643561011629 substrate binding pocket [chemical binding]; other site 643561011630 membrane-bound complex binding site; other site 643561011631 hinge residues; other site 643561011632 Predicted amidohydrolase [General function prediction only]; Region: COG0388 643561011633 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 643561011634 active site 643561011635 catalytic triad [active] 643561011636 dimer interface [polypeptide binding]; other site 643561011637 Second nitrilase domain of an uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_1_R2; cd07579 643561011638 Predicted amidohydrolase [General function prediction only]; Region: COG0388 643561011639 putative active site [active] 643561011640 catalytic triad [active] 643561011641 putative dimer interface [polypeptide binding]; other site 643561011642 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 643561011643 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 643561011644 Walker A/P-loop; other site 643561011645 ATP binding site [chemical binding]; other site 643561011646 Q-loop/lid; other site 643561011647 ABC transporter signature motif; other site 643561011648 Walker B; other site 643561011649 D-loop; other site 643561011650 H-loop/switch region; other site 643561011651 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 643561011652 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 643561011653 Walker A/P-loop; other site 643561011654 ATP binding site [chemical binding]; other site 643561011655 Q-loop/lid; other site 643561011656 ABC transporter signature motif; other site 643561011657 Walker B; other site 643561011658 D-loop; other site 643561011659 H-loop/switch region; other site 643561011660 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 643561011661 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 643561011662 TM-ABC transporter signature motif; other site 643561011663 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 643561011664 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643561011665 TM-ABC transporter signature motif; other site 643561011666 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 643561011667 Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF); Region: PBP1_AmiC_like; cd06331 643561011668 ligand binding site [chemical binding]; other site 643561011669 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 643561011670 ANTAR domain; Region: ANTAR; pfam03861 643561011671 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 643561011672 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 643561011673 ligand binding site [chemical binding]; other site 643561011674 regulator interaction site; other site 643561011675 PAS domain S-box; Region: sensory_box; TIGR00229 643561011676 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 643561011677 putative active site [active] 643561011678 heme pocket [chemical binding]; other site 643561011679 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561011680 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561011681 metal binding site [ion binding]; metal-binding site 643561011682 active site 643561011683 I-site; other site 643561011684 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561011685 metal binding site [ion binding]; metal-binding site 643561011686 active site 643561011687 I-site; other site 643561011688 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 643561011689 SIR2-like domain; Region: SIR2_2; pfam13289 643561011690 Domain of unknown function DUF87; Region: DUF87; pfam01935 643561011691 AAA-like domain; Region: AAA_10; pfam12846 643561011692 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 643561011693 KTSC domain; Region: KTSC; pfam13619 643561011694 Transposase; Region: HTH_Tnp_1; cl17663 643561011695 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 643561011696 IS2 transposase TnpB; Reviewed; Region: PRK09409 643561011697 HTH-like domain; Region: HTH_21; pfam13276 643561011698 Integrase core domain; Region: rve; pfam00665 643561011699 Integrase core domain; Region: rve_3; pfam13683 643561011700 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 643561011701 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 643561011702 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 643561011703 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 643561011704 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 643561011705 putative metal binding site [ion binding]; other site 643561011706 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 643561011707 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 643561011708 putative NAD(P) binding site [chemical binding]; other site 643561011709 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643561011710 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643561011711 seryl-tRNA synthetase; Provisional; Region: PRK05431 643561011712 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 643561011713 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 643561011714 dimer interface [polypeptide binding]; other site 643561011715 active site 643561011716 motif 1; other site 643561011717 motif 2; other site 643561011718 motif 3; other site 643561011719 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 643561011720 threonine dehydratase; Provisional; Region: PRK08246 643561011721 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 643561011722 catalytic residue [active] 643561011723 FOG: CBS domain [General function prediction only]; Region: COG0517 643561011724 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 643561011725 Domain of unknown function DUF21; Region: DUF21; pfam01595 643561011726 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 643561011727 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 643561011728 Transporter associated domain; Region: CorC_HlyC; smart01091 643561011729 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 643561011730 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 643561011731 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 643561011732 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 643561011733 hypothetical protein; Reviewed; Region: PRK00024 643561011734 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 643561011735 MPN+ (JAMM) motif; other site 643561011736 Zinc-binding site [ion binding]; other site 643561011737 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 643561011738 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 643561011739 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 643561011740 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 643561011741 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 643561011742 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 643561011743 Smr domain; Region: Smr; pfam01713 643561011744 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643561011745 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 643561011746 Mg2+ binding site [ion binding]; other site 643561011747 G-X-G motif; other site 643561011748 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 643561011749 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561011750 active site 643561011751 phosphorylation site [posttranslational modification] 643561011752 intermolecular recognition site; other site 643561011753 dimerization interface [polypeptide binding]; other site 643561011754 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 643561011755 DNA binding site [nucleotide binding] 643561011756 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 643561011757 Predicted membrane protein [Function unknown]; Region: COG3212 643561011758 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 643561011759 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 643561011760 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 643561011761 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 643561011762 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 643561011763 active site 643561011764 metal binding site [ion binding]; metal-binding site 643561011765 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 643561011766 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 643561011767 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 643561011768 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 643561011769 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 643561011770 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 643561011771 RHS Repeat; Region: RHS_repeat; pfam05593 643561011772 RHS Repeat; Region: RHS_repeat; pfam05593 643561011773 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 643561011774 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 643561011775 RHS Repeat; Region: RHS_repeat; pfam05593 643561011776 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 643561011777 RHS Repeat; Region: RHS_repeat; pfam05593 643561011778 RHS protein; Region: RHS; pfam03527 643561011779 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 643561011780 YwqJ-like deaminase; Region: YwqJ-deaminase; pfam14431 643561011781 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 643561011782 apolar tunnel; other site 643561011783 heme binding site [chemical binding]; other site 643561011784 dimerization interface [polypeptide binding]; other site 643561011785 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 643561011786 FtsX-like permease family; Region: FtsX; pfam02687 643561011787 anti-TRAP (AT) protein specific to Bacilli; Region: anti-TRAP; cd10748 643561011788 TRAP binding interface [polypeptide binding]; other site 643561011789 Zn binding site [ion binding]; other site 643561011790 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 643561011791 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 643561011792 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 643561011793 putative molybdopterin cofactor binding site [chemical binding]; other site 643561011794 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 643561011795 putative molybdopterin cofactor binding site; other site 643561011796 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 643561011797 dimerization interface [polypeptide binding]; other site 643561011798 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561011799 dimer interface [polypeptide binding]; other site 643561011800 putative CheW interface [polypeptide binding]; other site 643561011801 Major Facilitator Superfamily; Region: MFS_1; pfam07690 643561011802 Domain of unknown function DUF59; Region: DUF59; pfam01883 643561011803 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 643561011804 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 643561011805 Walker A motif; other site 643561011806 Restriction endonuclease; Region: Mrr_cat; pfam04471 643561011807 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 643561011808 active site 643561011809 nucleophile elbow; other site 643561011810 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 643561011811 pyruvate dehydrogenase; Provisional; Region: PRK09124 643561011812 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 643561011813 PYR/PP interface [polypeptide binding]; other site 643561011814 dimer interface [polypeptide binding]; other site 643561011815 tetramer interface [polypeptide binding]; other site 643561011816 TPP binding site [chemical binding]; other site 643561011817 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 643561011818 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 643561011819 TPP-binding site [chemical binding]; other site 643561011820 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 643561011821 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 643561011822 active site 643561011823 HIGH motif; other site 643561011824 KMSKS motif; other site 643561011825 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 643561011826 tRNA binding surface [nucleotide binding]; other site 643561011827 anticodon binding site; other site 643561011828 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 643561011829 dimer interface [polypeptide binding]; other site 643561011830 putative tRNA-binding site [nucleotide binding]; other site 643561011831 Uncharacterized conserved protein [Function unknown]; Region: COG1284 643561011832 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 643561011833 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 643561011834 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 643561011835 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 643561011836 L-aspartate oxidase; Provisional; Region: PRK09077 643561011837 L-aspartate oxidase; Provisional; Region: PRK06175 643561011838 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 643561011839 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 643561011840 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 643561011841 inhibitor-cofactor binding pocket; inhibition site 643561011842 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561011843 catalytic residue [active] 643561011844 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 643561011845 AAA domain; Region: AAA_26; pfam13500 643561011846 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 643561011847 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 643561011848 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 643561011849 catalytic residue [active] 643561011850 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 643561011851 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 643561011852 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 643561011853 active site 643561011854 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 643561011855 putative substrate binding pocket [chemical binding]; other site 643561011856 trimer interface [polypeptide binding]; other site 643561011857 aminodeoxychorismate synthase; Provisional; Region: PRK07508 643561011858 chorismate binding enzyme; Region: Chorismate_bind; cl10555 643561011859 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 643561011860 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 643561011861 substrate-cofactor binding pocket; other site 643561011862 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561011863 quinolinate synthetase; Provisional; Region: PRK09375 643561011864 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 643561011865 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 643561011866 dimerization interface [polypeptide binding]; other site 643561011867 active site 643561011868 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 643561011869 oligomerization interface [polypeptide binding]; other site 643561011870 active site 643561011871 metal binding site [ion binding]; metal-binding site 643561011872 Pantoate-beta-alanine ligase; Region: PanC; cd00560 643561011873 pantoate--beta-alanine ligase; Region: panC; TIGR00018 643561011874 active site 643561011875 ATP-binding site [chemical binding]; other site 643561011876 pantoate-binding site; other site 643561011877 HXXH motif; other site 643561011878 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 643561011879 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 643561011880 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 643561011881 preprotein translocase subunit SecB; Validated; Region: PRK05751 643561011882 SecA binding site; other site 643561011883 Preprotein binding site; other site 643561011884 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 643561011885 GSH binding site [chemical binding]; other site 643561011886 catalytic residues [active] 643561011887 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 643561011888 active site residue [active] 643561011889 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 643561011890 catalytic core [active] 643561011891 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 643561011892 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 643561011893 C-terminal peptidase (prc); Region: prc; TIGR00225 643561011894 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 643561011895 protein binding site [polypeptide binding]; other site 643561011896 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 643561011897 Catalytic dyad [active] 643561011898 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 643561011899 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 643561011900 ATP binding site [chemical binding]; other site 643561011901 substrate interface [chemical binding]; other site 643561011902 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 643561011903 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561011904 active site 643561011905 phosphorylation site [posttranslational modification] 643561011906 intermolecular recognition site; other site 643561011907 dimerization interface [polypeptide binding]; other site 643561011908 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 643561011909 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561011910 active site 643561011911 phosphorylation site [posttranslational modification] 643561011912 intermolecular recognition site; other site 643561011913 dimerization interface [polypeptide binding]; other site 643561011914 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 643561011915 DNA binding residues [nucleotide binding] 643561011916 dimerization interface [polypeptide binding]; other site 643561011917 CHASE3 domain; Region: CHASE3; pfam05227 643561011918 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 643561011919 Histidine kinase; Region: HisKA_3; pfam07730 643561011920 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 643561011921 ATP binding site [chemical binding]; other site 643561011922 Mg2+ binding site [ion binding]; other site 643561011923 G-X-G motif; other site 643561011924 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 643561011925 Ferritin-like domain; Region: Ferritin; pfam00210 643561011926 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 643561011927 dinuclear metal binding motif [ion binding]; other site 643561011928 BON domain; Region: BON; pfam04972 643561011929 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 643561011930 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 643561011931 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 643561011932 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 643561011933 active site 643561011934 (T/H)XGH motif; other site 643561011935 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 643561011936 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 643561011937 S-adenosylmethionine binding site [chemical binding]; other site 643561011938 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 643561011939 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 643561011940 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 643561011941 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 643561011942 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 643561011943 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 643561011944 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 643561011945 short chain dehydrogenase; Provisional; Region: PRK06138 643561011946 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 643561011947 NAD binding site [chemical binding]; other site 643561011948 homotetramer interface [polypeptide binding]; other site 643561011949 homodimer interface [polypeptide binding]; other site 643561011950 active site 643561011951 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 643561011952 Hemerythrin-like domain; Region: Hr-like; cd12108 643561011953 Fe binding site [ion binding]; other site 643561011954 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 643561011955 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 643561011956 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 643561011957 dimerization interface [polypeptide binding]; other site 643561011958 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561011959 dimer interface [polypeptide binding]; other site 643561011960 putative CheW interface [polypeptide binding]; other site 643561011961 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 643561011962 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 643561011963 MarC family integral membrane protein; Region: MarC; cl00919 643561011964 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 643561011965 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 643561011966 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 643561011967 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 643561011968 DNA binding residues [nucleotide binding] 643561011969 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561011970 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 643561011971 NAD(P) binding site [chemical binding]; other site 643561011972 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 643561011973 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 643561011974 ligand binding site [chemical binding]; other site 643561011975 flexible hinge region; other site 643561011976 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 643561011977 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 643561011978 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 643561011979 Cu(I) binding site [ion binding]; other site 643561011980 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 643561011981 UbiA prenyltransferase family; Region: UbiA; pfam01040 643561011982 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 643561011983 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 643561011984 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 643561011985 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 643561011986 Subunit III/VIIa interface [polypeptide binding]; other site 643561011987 Phospholipid binding site [chemical binding]; other site 643561011988 Subunit I/III interface [polypeptide binding]; other site 643561011989 Subunit III/VIb interface [polypeptide binding]; other site 643561011990 Subunit III/VIa interface; other site 643561011991 Subunit III/Vb interface [polypeptide binding]; other site 643561011992 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 643561011993 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 643561011994 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 643561011995 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 643561011996 Subunit I/III interface [polypeptide binding]; other site 643561011997 D-pathway; other site 643561011998 Subunit I/VIIc interface [polypeptide binding]; other site 643561011999 Subunit I/IV interface [polypeptide binding]; other site 643561012000 Subunit I/II interface [polypeptide binding]; other site 643561012001 Low-spin heme (heme a) binding site [chemical binding]; other site 643561012002 Subunit I/VIIa interface [polypeptide binding]; other site 643561012003 Subunit I/VIa interface [polypeptide binding]; other site 643561012004 Dimer interface; other site 643561012005 Putative water exit pathway; other site 643561012006 Binuclear center (heme a3/CuB) [ion binding]; other site 643561012007 K-pathway; other site 643561012008 Subunit I/Vb interface [polypeptide binding]; other site 643561012009 Putative proton exit pathway; other site 643561012010 Subunit I/VIb interface; other site 643561012011 Subunit I/VIc interface [polypeptide binding]; other site 643561012012 Electron transfer pathway; other site 643561012013 Subunit I/VIIIb interface [polypeptide binding]; other site 643561012014 Subunit I/VIIb interface [polypeptide binding]; other site 643561012015 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 643561012016 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 643561012017 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 643561012018 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 643561012019 Cytochrome c; Region: Cytochrom_C; pfam00034 643561012020 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 643561012021 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 643561012022 DNA utilization protein GntX; Provisional; Region: PRK11595 643561012023 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 643561012024 active site 643561012025 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 643561012026 transcriptional regulator; Provisional; Region: PRK10632 643561012027 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561012028 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 643561012029 putative effector binding pocket; other site 643561012030 dimerization interface [polypeptide binding]; other site 643561012031 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 643561012032 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 643561012033 putative active site [active] 643561012034 putative catalytic site [active] 643561012035 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 643561012036 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 643561012037 P-loop; other site 643561012038 Magnesium ion binding site [ion binding]; other site 643561012039 LysE type translocator; Region: LysE; cl00565 643561012040 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 643561012041 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 643561012042 TrkA-N domain; Region: TrkA_N; pfam02254 643561012043 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 643561012044 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 643561012045 MoxR-like ATPases [General function prediction only]; Region: COG0714 643561012046 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 643561012047 Walker A motif; other site 643561012048 ATP binding site [chemical binding]; other site 643561012049 Walker B motif; other site 643561012050 arginine finger; other site 643561012051 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 643561012052 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 643561012053 metal ion-dependent adhesion site (MIDAS); other site 643561012054 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 643561012055 Coenzyme A binding pocket [chemical binding]; other site 643561012056 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 643561012057 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 643561012058 MarR family; Region: MarR_2; cl17246 643561012059 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 643561012060 benzoate transport; Region: 2A0115; TIGR00895 643561012061 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 643561012062 putative substrate translocation pore; other site 643561012063 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 643561012064 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 643561012065 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 643561012066 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 643561012067 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 643561012068 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 643561012069 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 643561012070 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 643561012071 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 643561012072 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 643561012073 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 643561012074 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 643561012075 Isochorismatase family; Region: Isochorismatase; pfam00857 643561012076 catalytic triad [active] 643561012077 substrate binding site [chemical binding]; other site 643561012078 domain interfaces; other site 643561012079 conserved cis-peptide bond; other site 643561012080 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 643561012081 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 643561012082 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 643561012083 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 643561012084 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 643561012085 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 643561012086 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 643561012087 XdhC Rossmann domain; Region: XdhC_C; pfam13478 643561012088 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 643561012089 MarR family; Region: MarR_2; pfam12802 643561012090 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 643561012091 NmrA-like family; Region: NmrA; pfam05368 643561012092 NADP binding site [chemical binding]; other site 643561012093 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 643561012094 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 643561012095 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561012096 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 643561012097 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 643561012098 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 643561012099 classical (c) SDRs; Region: SDR_c; cd05233 643561012100 NAD(P) binding site [chemical binding]; other site 643561012101 active site 643561012102 YciI-like protein; Reviewed; Region: PRK12863 643561012103 Putative cyclase; Region: Cyclase; cl00814 643561012104 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 643561012105 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 643561012106 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 643561012107 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 643561012108 dimer interface [polypeptide binding]; other site 643561012109 active site 643561012110 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 643561012111 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 643561012112 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 643561012113 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 643561012114 Bacterial transcriptional regulator; Region: IclR; pfam01614 643561012115 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 643561012116 Cache domain; Region: Cache_1; pfam02743 643561012117 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 643561012118 dimerization interface [polypeptide binding]; other site 643561012119 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561012120 metal binding site [ion binding]; metal-binding site 643561012121 active site 643561012122 I-site; other site 643561012123 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 643561012124 Cytochrome c; Region: Cytochrom_C; cl11414 643561012125 Cytochrome c; Region: Cytochrom_C; cl11414 643561012126 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 643561012127 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 643561012128 Walker A motif; other site 643561012129 ATP binding site [chemical binding]; other site 643561012130 Walker B motif; other site 643561012131 arginine finger; other site 643561012132 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 643561012133 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 643561012134 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 643561012135 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 643561012136 Surface antigen; Region: Bac_surface_Ag; pfam01103 643561012137 Family of unknown function (DUF490); Region: DUF490; pfam04357 643561012138 GAF domain; Region: GAF; cl17456 643561012139 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 643561012140 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 643561012141 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 643561012142 aspartate carbamoyltransferase; Provisional; Region: PRK11891 643561012143 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 643561012144 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 643561012145 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 643561012146 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 643561012147 putative active site [active] 643561012148 catalytic site [active] 643561012149 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 643561012150 putative active site [active] 643561012151 catalytic site [active] 643561012152 sensor protein QseC; Provisional; Region: PRK10337 643561012153 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 643561012154 ATP binding site [chemical binding]; other site 643561012155 Mg2+ binding site [ion binding]; other site 643561012156 G-X-G motif; other site 643561012157 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 643561012158 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561012159 active site 643561012160 phosphorylation site [posttranslational modification] 643561012161 intermolecular recognition site; other site 643561012162 dimerization interface [polypeptide binding]; other site 643561012163 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 643561012164 DNA binding site [nucleotide binding] 643561012165 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 643561012166 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 643561012167 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 643561012168 protein binding site [polypeptide binding]; other site 643561012169 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 643561012170 protein binding site [polypeptide binding]; other site 643561012171 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 643561012172 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 643561012173 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 643561012174 Transposase domain (DUF772); Region: DUF772; pfam05598 643561012175 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 643561012176 DDE superfamily endonuclease; Region: DDE_4; cl17710 643561012177 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 643561012178 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 643561012179 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 643561012180 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 643561012181 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 643561012182 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 643561012183 CRISPR-associated protein Cas7/Csd2, subtype I-C/DVULG; Region: cas_Csd2; TIGR02589 643561012184 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 643561012185 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 643561012186 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 643561012187 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 643561012188 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 643561012189 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 643561012190 N-terminal plug; other site 643561012191 ligand-binding site [chemical binding]; other site 643561012192 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 643561012193 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 643561012194 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 643561012195 type II secretion system protein F; Region: GspF; TIGR02120 643561012196 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 643561012197 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 643561012198 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 643561012199 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 643561012200 Ca2+ binding site [ion binding]; other site 643561012201 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 643561012202 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 643561012203 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 643561012204 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 643561012205 Walker A/P-loop; other site 643561012206 ATP binding site [chemical binding]; other site 643561012207 Q-loop/lid; other site 643561012208 ABC transporter signature motif; other site 643561012209 Walker B; other site 643561012210 D-loop; other site 643561012211 H-loop/switch region; other site 643561012212 cyanophycin synthetase; Provisional; Region: PRK14016 643561012213 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 643561012214 cyanophycin synthetase; Provisional; Region: PRK14016 643561012215 ATP-grasp domain; Region: ATP-grasp_4; cl17255 643561012216 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 643561012217 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 643561012218 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 643561012219 CreA protein; Region: CreA; pfam05981 643561012220 Ulp1 protease family, C-terminal catalytic domain; Region: Peptidase_C48; cl17784 643561012221 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 643561012222 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 643561012223 catalytic residues [active] 643561012224 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 643561012225 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 643561012226 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 643561012227 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 643561012228 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 643561012229 heme binding pocket [chemical binding]; other site 643561012230 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 643561012231 domain interactions; other site 643561012232 Response regulator receiver domain; Region: Response_reg; pfam00072 643561012233 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561012234 active site 643561012235 phosphorylation site [posttranslational modification] 643561012236 intermolecular recognition site; other site 643561012237 dimerization interface [polypeptide binding]; other site 643561012238 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 643561012239 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561012240 active site 643561012241 phosphorylation site [posttranslational modification] 643561012242 intermolecular recognition site; other site 643561012243 dimerization interface [polypeptide binding]; other site 643561012244 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 643561012245 dimer interface [polypeptide binding]; other site 643561012246 phosphorylation site [posttranslational modification] 643561012247 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 643561012248 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 643561012249 ATP binding site [chemical binding]; other site 643561012250 Mg2+ binding site [ion binding]; other site 643561012251 G-X-G motif; other site 643561012252 CheB methylesterase; Region: CheB_methylest; pfam01339 643561012253 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 643561012254 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 643561012255 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 643561012256 CHASE3 domain; Region: CHASE3; pfam05227 643561012257 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 643561012258 dimer interface [polypeptide binding]; other site 643561012259 phosphorylation site [posttranslational modification] 643561012260 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 643561012261 ATP binding site [chemical binding]; other site 643561012262 Mg2+ binding site [ion binding]; other site 643561012263 G-X-G motif; other site 643561012264 Response regulator receiver domain; Region: Response_reg; pfam00072 643561012265 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561012266 active site 643561012267 phosphorylation site [posttranslational modification] 643561012268 intermolecular recognition site; other site 643561012269 dimerization interface [polypeptide binding]; other site 643561012270 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 643561012271 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561012272 active site 643561012273 phosphorylation site [posttranslational modification] 643561012274 intermolecular recognition site; other site 643561012275 dimerization interface [polypeptide binding]; other site 643561012276 Response regulator receiver domain; Region: Response_reg; pfam00072 643561012277 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561012278 active site 643561012279 phosphorylation site [posttranslational modification] 643561012280 intermolecular recognition site; other site 643561012281 dimerization interface [polypeptide binding]; other site 643561012282 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561012283 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561012284 metal binding site [ion binding]; metal-binding site 643561012285 active site 643561012286 I-site; other site 643561012287 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 643561012288 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 643561012289 N-terminal plug; other site 643561012290 ligand-binding site [chemical binding]; other site 643561012291 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 643561012292 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_3; cd08490 643561012293 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 643561012294 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 643561012295 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561012296 ABC-ATPase subunit interface; other site 643561012297 putative PBP binding loops; other site 643561012298 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 643561012299 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 643561012300 dimer interface [polypeptide binding]; other site 643561012301 ABC-ATPase subunit interface; other site 643561012302 putative PBP binding loops; other site 643561012303 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 643561012304 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643561012305 Walker A/P-loop; other site 643561012306 ATP binding site [chemical binding]; other site 643561012307 Q-loop/lid; other site 643561012308 ABC transporter signature motif; other site 643561012309 Walker B; other site 643561012310 D-loop; other site 643561012311 H-loop/switch region; other site 643561012312 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643561012313 Walker A/P-loop; other site 643561012314 ATP binding site [chemical binding]; other site 643561012315 Q-loop/lid; other site 643561012316 ABC transporter signature motif; other site 643561012317 Walker B; other site 643561012318 D-loop; other site 643561012319 H-loop/switch region; other site 643561012320 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 643561012321 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 643561012322 ATP binding site [chemical binding]; other site 643561012323 putative Mg++ binding site [ion binding]; other site 643561012324 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 643561012325 nucleotide binding region [chemical binding]; other site 643561012326 ATP-binding site [chemical binding]; other site 643561012327 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 643561012328 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 643561012329 XdhC Rossmann domain; Region: XdhC_C; pfam13478 643561012330 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 643561012331 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 643561012332 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 643561012333 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 643561012334 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 643561012335 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 643561012336 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 643561012337 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 643561012338 metal-binding site 643561012339 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 643561012340 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 643561012341 NAD binding site [chemical binding]; other site 643561012342 catalytic Zn binding site [ion binding]; other site 643561012343 structural Zn binding site [ion binding]; other site 643561012344 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 643561012345 dimer interface [polypeptide binding]; other site 643561012346 FMN binding site [chemical binding]; other site 643561012347 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 643561012348 nudix motif; other site 643561012349 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 643561012350 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 643561012351 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 643561012352 active site 643561012353 metal binding site [ion binding]; metal-binding site 643561012354 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 643561012355 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 643561012356 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 643561012357 putative dimerization interface [polypeptide binding]; other site 643561012358 Predicted membrane protein [Function unknown]; Region: COG2855 643561012359 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 643561012360 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 643561012361 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 643561012362 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 643561012363 substrate binding pocket [chemical binding]; other site 643561012364 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 643561012365 OsmC-like protein; Region: OsmC; cl00767 643561012366 Cupin; Region: Cupin_6; pfam12852 643561012367 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643561012368 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 643561012369 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643561012370 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 643561012371 putative active site [active] 643561012372 putative metal binding residues [ion binding]; other site 643561012373 signature motif; other site 643561012374 putative triphosphate binding site [ion binding]; other site 643561012375 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 643561012376 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561012377 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561012378 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 643561012379 dimerization interface [polypeptide binding]; other site 643561012380 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 643561012381 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561012382 dimer interface [polypeptide binding]; other site 643561012383 conserved gate region; other site 643561012384 putative PBP binding loops; other site 643561012385 ABC-ATPase subunit interface; other site 643561012386 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 643561012387 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561012388 dimer interface [polypeptide binding]; other site 643561012389 conserved gate region; other site 643561012390 putative PBP binding loops; other site 643561012391 ABC-ATPase subunit interface; other site 643561012392 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 643561012393 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 643561012394 Walker A/P-loop; other site 643561012395 ATP binding site [chemical binding]; other site 643561012396 Q-loop/lid; other site 643561012397 ABC transporter signature motif; other site 643561012398 Walker B; other site 643561012399 D-loop; other site 643561012400 H-loop/switch region; other site 643561012401 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 643561012402 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 643561012403 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 643561012404 Walker A/P-loop; other site 643561012405 ATP binding site [chemical binding]; other site 643561012406 Q-loop/lid; other site 643561012407 ABC transporter signature motif; other site 643561012408 Walker B; other site 643561012409 D-loop; other site 643561012410 H-loop/switch region; other site 643561012411 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 643561012412 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 643561012413 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 643561012414 Predicted acyl esterases [General function prediction only]; Region: COG2936 643561012415 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 643561012416 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 643561012417 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 643561012418 trimer interface [polypeptide binding]; other site 643561012419 eyelet of channel; other site 643561012420 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 643561012421 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 643561012422 putative ligand binding site [chemical binding]; other site 643561012423 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 643561012424 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 643561012425 dimerization interface [polypeptide binding]; other site 643561012426 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561012427 dimer interface [polypeptide binding]; other site 643561012428 putative CheW interface [polypeptide binding]; other site 643561012429 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 643561012430 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 643561012431 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 643561012432 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 643561012433 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 643561012434 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 643561012435 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561012436 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561012437 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 643561012438 dimerization interface [polypeptide binding]; other site 643561012439 SnoaL-like domain; Region: SnoaL_2; pfam12680 643561012440 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 643561012441 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 643561012442 glutaminase active site [active] 643561012443 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 643561012444 dimer interface [polypeptide binding]; other site 643561012445 active site 643561012446 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 643561012447 dimer interface [polypeptide binding]; other site 643561012448 active site 643561012449 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 643561012450 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 643561012451 putative DNA binding site [nucleotide binding]; other site 643561012452 putative Zn2+ binding site [ion binding]; other site 643561012453 AsnC family; Region: AsnC_trans_reg; pfam01037 643561012454 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 643561012455 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643561012456 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 643561012457 dimer interface [polypeptide binding]; other site 643561012458 phosphorylation site [posttranslational modification] 643561012459 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 643561012460 ATP binding site [chemical binding]; other site 643561012461 Mg2+ binding site [ion binding]; other site 643561012462 G-X-G motif; other site 643561012463 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 643561012464 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 643561012465 Substrate binding site; other site 643561012466 Mg++ binding site; other site 643561012467 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 643561012468 active site 643561012469 substrate binding site [chemical binding]; other site 643561012470 CoA binding site [chemical binding]; other site 643561012471 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 643561012472 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 643561012473 ligand binding site [chemical binding]; other site 643561012474 flexible hinge region; other site 643561012475 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 643561012476 putative switch regulator; other site 643561012477 non-specific DNA interactions [nucleotide binding]; other site 643561012478 DNA binding site [nucleotide binding] 643561012479 sequence specific DNA binding site [nucleotide binding]; other site 643561012480 putative cAMP binding site [chemical binding]; other site 643561012481 Sensors of blue-light using FAD; Region: BLUF; smart01034 643561012482 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 643561012483 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 643561012484 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561012485 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 643561012486 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 643561012487 dimerization interface [polypeptide binding]; other site 643561012488 substrate binding pocket [chemical binding]; other site 643561012489 oxidase reductase; Provisional; Region: PTZ00273 643561012490 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 643561012491 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 643561012492 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 643561012493 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 643561012494 active site 643561012495 metal binding site [ion binding]; metal-binding site 643561012496 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 643561012497 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 643561012498 putative ligand binding site [chemical binding]; other site 643561012499 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 643561012500 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 643561012501 Walker A/P-loop; other site 643561012502 ATP binding site [chemical binding]; other site 643561012503 Q-loop/lid; other site 643561012504 ABC transporter signature motif; other site 643561012505 Walker B; other site 643561012506 D-loop; other site 643561012507 H-loop/switch region; other site 643561012508 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 643561012509 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643561012510 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 643561012511 TM-ABC transporter signature motif; other site 643561012512 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643561012513 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 643561012514 TM-ABC transporter signature motif; other site 643561012515 Isochorismatase family; Region: Isochorismatase; pfam00857 643561012516 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; cd00431 643561012517 catalytic triad [active] 643561012518 conserved cis-peptide bond; other site 643561012519 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 643561012520 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 643561012521 active site 643561012522 HIGH motif; other site 643561012523 dimer interface [polypeptide binding]; other site 643561012524 KMSKS motif; other site 643561012525 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 643561012526 Peptidase family M23; Region: Peptidase_M23; pfam01551 643561012527 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 643561012528 putative transporter; Provisional; Region: PRK10504 643561012529 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 643561012530 putative substrate translocation pore; other site 643561012531 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 643561012532 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 643561012533 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 643561012534 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 643561012535 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 643561012536 23S rRNA interface [nucleotide binding]; other site 643561012537 L3 interface [polypeptide binding]; other site 643561012538 Protein kinase domain; Region: Pkinase; pfam00069 643561012539 Catalytic domain of Protein Kinases; Region: PKc; cd00180 643561012540 active site 643561012541 ATP binding site [chemical binding]; other site 643561012542 substrate binding site [chemical binding]; other site 643561012543 activation loop (A-loop); other site 643561012544 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 643561012545 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 643561012546 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 643561012547 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 643561012548 FAD binding site [chemical binding]; other site 643561012549 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 643561012550 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 643561012551 FtsJ-like methyltransferase; Region: FtsJ; cl17430 643561012552 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 643561012553 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 643561012554 homotetramer interface [polypeptide binding]; other site 643561012555 ligand binding site [chemical binding]; other site 643561012556 catalytic site [active] 643561012557 NAD binding site [chemical binding]; other site 643561012558 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 643561012559 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 643561012560 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 643561012561 G1 box; other site 643561012562 putative GEF interaction site [polypeptide binding]; other site 643561012563 GTP/Mg2+ binding site [chemical binding]; other site 643561012564 Switch I region; other site 643561012565 G2 box; other site 643561012566 G3 box; other site 643561012567 Switch II region; other site 643561012568 G4 box; other site 643561012569 G5 box; other site 643561012570 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 643561012571 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 643561012572 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 643561012573 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 643561012574 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 643561012575 Ligand binding site; other site 643561012576 Putative Catalytic site; other site 643561012577 DXD motif; other site 643561012578 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 643561012579 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 643561012580 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561012581 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 643561012582 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 643561012583 Walker A/P-loop; other site 643561012584 ATP binding site [chemical binding]; other site 643561012585 Q-loop/lid; other site 643561012586 ABC transporter signature motif; other site 643561012587 Walker B; other site 643561012588 D-loop; other site 643561012589 H-loop/switch region; other site 643561012590 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 643561012591 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561012592 dimer interface [polypeptide binding]; other site 643561012593 conserved gate region; other site 643561012594 putative PBP binding loops; other site 643561012595 ABC-ATPase subunit interface; other site 643561012596 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561012597 dimer interface [polypeptide binding]; other site 643561012598 conserved gate region; other site 643561012599 putative PBP binding loops; other site 643561012600 ABC-ATPase subunit interface; other site 643561012601 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 643561012602 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 643561012603 substrate binding pocket [chemical binding]; other site 643561012604 membrane-bound complex binding site; other site 643561012605 hinge residues; other site 643561012606 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 643561012607 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 643561012608 substrate binding pocket [chemical binding]; other site 643561012609 membrane-bound complex binding site; other site 643561012610 hinge residues; other site 643561012611 cell density-dependent motility repressor; Provisional; Region: PRK10082 643561012612 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561012613 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 643561012614 dimerization interface [polypeptide binding]; other site 643561012615 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 643561012616 DctM-like transporters; Region: DctM; pfam06808 643561012617 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 643561012618 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 643561012619 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 643561012620 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 643561012621 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 643561012622 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 643561012623 Walker A/P-loop; other site 643561012624 ATP binding site [chemical binding]; other site 643561012625 Q-loop/lid; other site 643561012626 ABC transporter signature motif; other site 643561012627 Walker B; other site 643561012628 D-loop; other site 643561012629 H-loop/switch region; other site 643561012630 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 643561012631 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 643561012632 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561012633 enoyl-CoA hydratase; Provisional; Region: PRK06688 643561012634 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 643561012635 substrate binding site [chemical binding]; other site 643561012636 oxyanion hole (OAH) forming residues; other site 643561012637 trimer interface [polypeptide binding]; other site 643561012638 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 643561012639 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 643561012640 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 643561012641 dimer interface [polypeptide binding]; other site 643561012642 active site 643561012643 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 643561012644 CoenzymeA binding site [chemical binding]; other site 643561012645 subunit interaction site [polypeptide binding]; other site 643561012646 PHB binding site; other site 643561012647 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 643561012648 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 643561012649 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 643561012650 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 643561012651 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 643561012652 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 643561012653 substrate binding site [chemical binding]; other site 643561012654 oxyanion hole (OAH) forming residues; other site 643561012655 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 643561012656 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 643561012657 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 643561012658 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 643561012659 active site 643561012660 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 643561012661 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643561012662 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643561012663 division inhibitor protein; Provisional; Region: slmA; PRK09480 643561012664 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643561012665 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 643561012666 dimer interface [polypeptide binding]; other site 643561012667 phosphorylation site [posttranslational modification] 643561012668 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 643561012669 ATP binding site [chemical binding]; other site 643561012670 Mg2+ binding site [ion binding]; other site 643561012671 G-X-G motif; other site 643561012672 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 643561012673 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561012674 active site 643561012675 phosphorylation site [posttranslational modification] 643561012676 intermolecular recognition site; other site 643561012677 dimerization interface [polypeptide binding]; other site 643561012678 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 643561012679 DNA binding site [nucleotide binding] 643561012680 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 643561012681 feedback inhibition sensing region; other site 643561012682 homohexameric interface [polypeptide binding]; other site 643561012683 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 643561012684 nucleotide binding site [chemical binding]; other site 643561012685 N-acetyl-L-glutamate binding site [chemical binding]; other site 643561012686 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 643561012687 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 643561012688 Mg++ binding site [ion binding]; other site 643561012689 putative catalytic motif [active] 643561012690 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 643561012691 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 643561012692 Methyltransferase domain; Region: Methyltransf_23; pfam13489 643561012693 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 643561012694 S-adenosylmethionine binding site [chemical binding]; other site 643561012695 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 643561012696 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 643561012697 Probable Catalytic site; other site 643561012698 metal-binding site 643561012699 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 643561012700 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 643561012701 Methyltransferase domain; Region: Methyltransf_23; pfam13489 643561012702 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 643561012703 S-adenosylmethionine binding site [chemical binding]; other site 643561012704 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 643561012705 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 643561012706 Walker A/P-loop; other site 643561012707 ATP binding site [chemical binding]; other site 643561012708 Q-loop/lid; other site 643561012709 ABC transporter signature motif; other site 643561012710 Walker B; other site 643561012711 D-loop; other site 643561012712 H-loop/switch region; other site 643561012713 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 643561012714 putative carbohydrate binding site [chemical binding]; other site 643561012715 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 643561012716 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 643561012717 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 643561012718 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 643561012719 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 643561012720 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 643561012721 Type II secretion system (T2SS), protein M subtype b; Region: T2SM_b; pfam10741 643561012722 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 643561012723 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 643561012724 general secretion pathway protein J; Validated; Region: PRK08808 643561012725 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 643561012726 type II secretion system protein I; Region: gspI; TIGR01707 643561012727 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 643561012728 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 643561012729 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 643561012730 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 643561012731 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 643561012732 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 643561012733 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 643561012734 type II secretion system protein E; Region: type_II_gspE; TIGR02533 643561012735 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 643561012736 Walker A motif; other site 643561012737 ATP binding site [chemical binding]; other site 643561012738 Walker B motif; other site 643561012739 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 643561012740 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 643561012741 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 643561012742 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 643561012743 substrate binding site; other site 643561012744 tetramer interface; other site 643561012745 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 643561012746 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 643561012747 NADP binding site [chemical binding]; other site 643561012748 active site 643561012749 putative substrate binding site [chemical binding]; other site 643561012750 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 643561012751 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 643561012752 NAD binding site [chemical binding]; other site 643561012753 substrate binding site [chemical binding]; other site 643561012754 homodimer interface [polypeptide binding]; other site 643561012755 active site 643561012756 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643561012757 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643561012758 Bacterial transcriptional repressor; Region: TetR; pfam13972 643561012759 pantothenate kinase; Reviewed; Region: PRK13329 643561012760 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 643561012761 BON domain; Region: BON; pfam04972 643561012762 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 643561012763 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 643561012764 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643561012765 DNA-binding site [nucleotide binding]; DNA binding site 643561012766 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 643561012767 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561012768 homodimer interface [polypeptide binding]; other site 643561012769 catalytic residue [active] 643561012770 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 643561012771 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 643561012772 active site residue [active] 643561012773 Protein of unknown function DUF45; Region: DUF45; pfam01863 643561012774 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 643561012775 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 643561012776 putative acyl-acceptor binding pocket; other site 643561012777 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 643561012778 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 643561012779 active site 643561012780 motif I; other site 643561012781 motif II; other site 643561012782 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 643561012783 DALR anticodon binding domain; Region: DALR_1; pfam05746 643561012784 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 643561012785 dimer interface [polypeptide binding]; other site 643561012786 motif 1; other site 643561012787 active site 643561012788 motif 2; other site 643561012789 motif 3; other site 643561012790 Cytochrome c [Energy production and conversion]; Region: COG3258 643561012791 Cytochrome c; Region: Cytochrom_C; pfam00034 643561012792 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 643561012793 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 643561012794 dimer interface [polypeptide binding]; other site 643561012795 active site 643561012796 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 643561012797 dimer interface [polypeptide binding]; other site 643561012798 active site 1 [active] 643561012799 active site 2 [active] 643561012800 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 643561012801 homodimer interface [polypeptide binding]; other site 643561012802 active site 643561012803 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561012804 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561012805 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 643561012806 dimerization interface [polypeptide binding]; other site 643561012807 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 643561012808 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 643561012809 putative active site [active] 643561012810 catalytic triad [active] 643561012811 putative dimer interface [polypeptide binding]; other site 643561012812 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 643561012813 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 643561012814 Transporter associated domain; Region: CorC_HlyC; smart01091 643561012815 PAAR motif; Region: PAAR_motif; pfam05488 643561012816 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 643561012817 RHS Repeat; Region: RHS_repeat; pfam05593 643561012818 RHS Repeat; Region: RHS_repeat; pfam05593 643561012819 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 643561012820 RHS Repeat; Region: RHS_repeat; pfam05593 643561012821 RHS Repeat; Region: RHS_repeat; pfam05593 643561012822 RHS protein; Region: RHS; pfam03527 643561012823 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 643561012824 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 643561012825 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 643561012826 Coenzyme A binding pocket [chemical binding]; other site 643561012827 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 643561012828 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 643561012829 putative DNA binding site [nucleotide binding]; other site 643561012830 putative Zn2+ binding site [ion binding]; other site 643561012831 AsnC family; Region: AsnC_trans_reg; pfam01037 643561012832 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 643561012833 Putative serine esterase (DUF676); Region: DUF676; pfam05057 643561012834 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 643561012835 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 643561012836 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 643561012837 dimer interface [polypeptide binding]; other site 643561012838 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 643561012839 active site 643561012840 Fe binding site [ion binding]; other site 643561012841 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561012842 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 643561012843 cofactor binding site; other site 643561012844 metal binding site [ion binding]; metal-binding site 643561012845 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 643561012846 PGAP1-like protein; Region: PGAP1; pfam07819 643561012847 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 643561012848 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 643561012849 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 643561012850 acyl-activating enzyme (AAE) consensus motif; other site 643561012851 putative AMP binding site [chemical binding]; other site 643561012852 putative active site [active] 643561012853 putative CoA binding site [chemical binding]; other site 643561012854 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 643561012855 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 643561012856 ligand binding site [chemical binding]; other site 643561012857 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 643561012858 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 643561012859 Walker A/P-loop; other site 643561012860 ATP binding site [chemical binding]; other site 643561012861 Q-loop/lid; other site 643561012862 ABC transporter signature motif; other site 643561012863 Walker B; other site 643561012864 D-loop; other site 643561012865 H-loop/switch region; other site 643561012866 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 643561012867 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 643561012868 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 643561012869 TM-ABC transporter signature motif; other site 643561012870 Transcriptional regulators [Transcription]; Region: PurR; COG1609 643561012871 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 643561012872 DNA binding site [nucleotide binding] 643561012873 domain linker motif; other site 643561012874 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 643561012875 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 643561012876 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 643561012877 substrate binding site [chemical binding]; other site 643561012878 dimer interface [polypeptide binding]; other site 643561012879 ATP binding site [chemical binding]; other site 643561012880 D-ribose pyranase; Provisional; Region: PRK11797 643561012881 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 643561012882 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 643561012883 N-acetyl-D-glucosamine binding site [chemical binding]; other site 643561012884 catalytic residue [active] 643561012885 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 643561012886 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 643561012887 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 643561012888 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 643561012889 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561012890 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561012891 metal binding site [ion binding]; metal-binding site 643561012892 active site 643561012893 I-site; other site 643561012894 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 643561012895 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 643561012896 putative C-terminal domain interface [polypeptide binding]; other site 643561012897 putative GSH binding site (G-site) [chemical binding]; other site 643561012898 putative dimer interface [polypeptide binding]; other site 643561012899 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 643561012900 putative substrate binding pocket (H-site) [chemical binding]; other site 643561012901 putative N-terminal domain interface [polypeptide binding]; other site 643561012902 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 643561012903 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 643561012904 active site 643561012905 NTP binding site [chemical binding]; other site 643561012906 metal binding triad [ion binding]; metal-binding site 643561012907 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 643561012908 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 643561012909 Zn2+ binding site [ion binding]; other site 643561012910 Mg2+ binding site [ion binding]; other site 643561012911 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 643561012912 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 643561012913 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 643561012914 catalytic residues [active] 643561012915 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 643561012916 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 643561012917 active site 643561012918 motif I; other site 643561012919 motif II; other site 643561012920 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 643561012921 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 643561012922 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 643561012923 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 643561012924 active site 643561012925 homotetramer interface [polypeptide binding]; other site 643561012926 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 643561012927 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 643561012928 nucleotide binding site [chemical binding]; other site 643561012929 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 643561012930 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 643561012931 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 643561012932 active site 643561012933 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 643561012934 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 643561012935 acyl-activating enzyme (AAE) consensus motif; other site 643561012936 AMP binding site [chemical binding]; other site 643561012937 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 643561012938 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 643561012939 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 643561012940 active site 643561012941 metal binding site [ion binding]; metal-binding site 643561012942 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 643561012943 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 643561012944 Coenzyme A binding pocket [chemical binding]; other site 643561012945 Bacterial DNA topoisomerase I DNA-binding domain; Region: TOP1Ac; smart00437 643561012946 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 643561012947 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 643561012948 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 643561012949 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 643561012950 inhibitor-cofactor binding pocket; inhibition site 643561012951 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561012952 catalytic residue [active] 643561012953 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 643561012954 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561012955 catalytic residue [active] 643561012956 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 643561012957 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 643561012958 substrate binding pocket [chemical binding]; other site 643561012959 membrane-bound complex binding site; other site 643561012960 hinge residues; other site 643561012961 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 643561012962 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 643561012963 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561012964 putative PBP binding loops; other site 643561012965 ABC-ATPase subunit interface; other site 643561012966 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 643561012967 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 643561012968 Walker A/P-loop; other site 643561012969 ATP binding site [chemical binding]; other site 643561012970 Q-loop/lid; other site 643561012971 ABC transporter signature motif; other site 643561012972 Walker B; other site 643561012973 D-loop; other site 643561012974 H-loop/switch region; other site 643561012975 NMT1-like family; Region: NMT1_2; pfam13379 643561012976 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 643561012977 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 643561012978 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 643561012979 active site 643561012980 iron coordination sites [ion binding]; other site 643561012981 substrate binding pocket [chemical binding]; other site 643561012982 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 643561012983 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 643561012984 substrate binding pocket [chemical binding]; other site 643561012985 active site 643561012986 iron coordination sites [ion binding]; other site 643561012987 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 643561012988 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 643561012989 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561012990 dimer interface [polypeptide binding]; other site 643561012991 conserved gate region; other site 643561012992 putative PBP binding loops; other site 643561012993 ABC-ATPase subunit interface; other site 643561012994 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 643561012995 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561012996 dimer interface [polypeptide binding]; other site 643561012997 conserved gate region; other site 643561012998 putative PBP binding loops; other site 643561012999 ABC-ATPase subunit interface; other site 643561013000 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 643561013001 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 643561013002 Walker A/P-loop; other site 643561013003 ATP binding site [chemical binding]; other site 643561013004 Q-loop/lid; other site 643561013005 ABC transporter signature motif; other site 643561013006 Walker B; other site 643561013007 D-loop; other site 643561013008 H-loop/switch region; other site 643561013009 TOBE domain; Region: TOBE; pfam03459 643561013010 Uncharacterized conserved protein [Function unknown]; Region: COG1565 643561013011 pteridine reductase; Provisional; Region: PRK09135 643561013012 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643561013013 NAD(P) binding site [chemical binding]; other site 643561013014 active site 643561013015 Dihydroneopterin aldolase; Region: FolB; smart00905 643561013016 active site 643561013017 Protein of unknown function (DUF466); Region: DUF466; pfam04328 643561013018 carbon starvation protein A; Provisional; Region: PRK15015 643561013019 Carbon starvation protein CstA; Region: CstA; pfam02554 643561013020 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 643561013021 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 643561013022 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561013023 active site 643561013024 phosphorylation site [posttranslational modification] 643561013025 intermolecular recognition site; other site 643561013026 dimerization interface [polypeptide binding]; other site 643561013027 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 643561013028 DNA binding residues [nucleotide binding] 643561013029 dimerization interface [polypeptide binding]; other site 643561013030 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 643561013031 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 643561013032 Histidine kinase; Region: HisKA_3; pfam07730 643561013033 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 643561013034 ATP binding site [chemical binding]; other site 643561013035 Mg2+ binding site [ion binding]; other site 643561013036 G-X-G motif; other site 643561013037 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 643561013038 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 643561013039 Ligand Binding Site [chemical binding]; other site 643561013040 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 643561013041 catalytic core [active] 643561013042 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 643561013043 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 643561013044 dimer interface [polypeptide binding]; other site 643561013045 active site 643561013046 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 643561013047 substrate binding site [chemical binding]; other site 643561013048 catalytic residue [active] 643561013049 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 643561013050 Phage Tail Collar Domain; Region: Collar; pfam07484 643561013051 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 643561013052 Phage Tail Collar Domain; Region: Collar; pfam07484 643561013053 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 643561013054 Phage Tail Collar Domain; Region: Collar; pfam07484 643561013055 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 643561013056 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 643561013057 Walker A motif; other site 643561013058 ATP binding site [chemical binding]; other site 643561013059 Walker B motif; other site 643561013060 arginine finger; other site 643561013061 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 643561013062 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 643561013063 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 643561013064 RuvA N terminal domain; Region: RuvA_N; pfam01330 643561013065 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 643561013066 PhoH-like protein; Region: PhoH; pfam02562 643561013067 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 643561013068 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 643561013069 putative active site [active] 643561013070 dimerization interface [polypeptide binding]; other site 643561013071 putative tRNAtyr binding site [nucleotide binding]; other site 643561013072 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 643561013073 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 643561013074 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 643561013075 active site 643561013076 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561013077 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 643561013078 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643561013079 DNA-binding site [nucleotide binding]; DNA binding site 643561013080 UTRA domain; Region: UTRA; pfam07702 643561013081 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 643561013082 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 643561013083 ATP binding site [chemical binding]; other site 643561013084 Mg++ binding site [ion binding]; other site 643561013085 motif III; other site 643561013086 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 643561013087 nucleotide binding region [chemical binding]; other site 643561013088 ATP-binding site [chemical binding]; other site 643561013089 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 643561013090 putative RNA binding site [nucleotide binding]; other site 643561013091 AMP nucleosidase; Provisional; Region: PRK08292 643561013092 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 643561013093 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 643561013094 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561013095 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561013096 metal binding site [ion binding]; metal-binding site 643561013097 active site 643561013098 I-site; other site 643561013099 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 643561013100 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 643561013101 trimer interface [polypeptide binding]; other site 643561013102 eyelet of channel; other site 643561013103 benzoate transport; Region: 2A0115; TIGR00895 643561013104 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 643561013105 putative substrate translocation pore; other site 643561013106 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 643561013107 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 643561013108 Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form...; Region: 1,2-HQD; cd03461 643561013109 dimer interface [polypeptide binding]; other site 643561013110 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 643561013111 active site 643561013112 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 643561013113 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 643561013114 active site 643561013115 dimer interface [polypeptide binding]; other site 643561013116 metal binding site [ion binding]; metal-binding site 643561013117 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 643561013118 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561013119 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 643561013120 substrate binding pocket [chemical binding]; other site 643561013121 dimerization interface [polypeptide binding]; other site 643561013122 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 643561013123 MarR family; Region: MarR; pfam01047 643561013124 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 643561013125 Naphthocyclinone hydroxylase; Region: NcnH; cd01159 643561013126 Flavin binding site [chemical binding]; other site 643561013127 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 643561013128 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 643561013129 N-acetylmuramoyl-L-alanine amidase; Region: Amidase_2; pfam01510 643561013130 amidase catalytic site [active] 643561013131 Zn binding residues [ion binding]; other site 643561013132 substrate binding site [chemical binding]; other site 643561013133 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 643561013134 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 643561013135 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 643561013136 shikimate binding site; other site 643561013137 NAD(P) binding site [chemical binding]; other site 643561013138 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 643561013139 active site 643561013140 P-loop; other site 643561013141 phosphorylation site [posttranslational modification] 643561013142 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 643561013143 active site 643561013144 P-loop; other site 643561013145 phosphorylation site [posttranslational modification] 643561013146 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 643561013147 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 643561013148 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 643561013149 substrate binding site [chemical binding]; other site 643561013150 ATP binding site [chemical binding]; other site 643561013151 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 643561013152 active site 643561013153 phosphorylation site [posttranslational modification] 643561013154 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 643561013155 dimerization domain swap beta strand [polypeptide binding]; other site 643561013156 regulatory protein interface [polypeptide binding]; other site 643561013157 active site 643561013158 regulatory phosphorylation site [posttranslational modification]; other site 643561013159 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 643561013160 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 643561013161 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 643561013162 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 643561013163 Transcriptional regulators [Transcription]; Region: PurR; COG1609 643561013164 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 643561013165 DNA binding site [nucleotide binding] 643561013166 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 643561013167 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 643561013168 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 643561013169 TonB C terminal; Region: TonB_2; pfam13103 643561013170 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 643561013171 Nucleotide-binding domain of Escherichia coli HscC and similar proteins; Region: HscC_like_NBD; cd10235 643561013172 nucleotide binding site [chemical binding]; other site 643561013173 putative NEF/HSP70 interaction site [polypeptide binding]; other site 643561013174 SBD interface [polypeptide binding]; other site 643561013175 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 643561013176 putative active site [active] 643561013177 putative catalytic triad [active] 643561013178 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 643561013179 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 643561013180 ATP-grasp domain; Region: ATP-grasp; pfam02222 643561013181 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 643561013182 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 643561013183 YCII-related domain; Region: YCII; cl00999 643561013184 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 643561013185 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 643561013186 LysR family transcriptional regulator; Provisional; Region: PRK14997 643561013187 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561013188 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 643561013189 dimerization interface [polypeptide binding]; other site 643561013190 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 643561013191 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 643561013192 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 643561013193 Transcriptional regulator [Transcription]; Region: IclR; COG1414 643561013194 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 643561013195 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 643561013196 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561013197 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 643561013198 homotrimer interaction site [polypeptide binding]; other site 643561013199 putative active site [active] 643561013200 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 643561013201 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 643561013202 active site 643561013203 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 643561013204 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 643561013205 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 643561013206 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 643561013207 Transcriptional regulators [Transcription]; Region: MarR; COG1846 643561013208 MarR family; Region: MarR; pfam01047 643561013209 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 643561013210 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 643561013211 active site 643561013212 metal binding site [ion binding]; metal-binding site 643561013213 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 643561013214 Catalytic domain of Protein Kinases; Region: PKc; cd00180 643561013215 active site 643561013216 ATP binding site [chemical binding]; other site 643561013217 substrate binding site [chemical binding]; other site 643561013218 activation loop (A-loop); other site 643561013219 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 643561013220 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 643561013221 serine/threonine protein kinase; Provisional; Region: PRK11768 643561013222 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 643561013223 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561013224 active site 643561013225 phosphorylation site [posttranslational modification] 643561013226 intermolecular recognition site; other site 643561013227 dimerization interface [polypeptide binding]; other site 643561013228 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 643561013229 DNA binding site [nucleotide binding] 643561013230 Domain of unknown function DUF11; Region: DUF11; pfam01345 643561013231 Domain of unknown function DUF11; Region: DUF11; pfam01345 643561013232 Domain of unknown function DUF11; Region: DUF11; pfam01345 643561013233 HAMP domain; Region: HAMP; pfam00672 643561013234 dimerization interface [polypeptide binding]; other site 643561013235 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 643561013236 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 643561013237 dimer interface [polypeptide binding]; other site 643561013238 phosphorylation site [posttranslational modification] 643561013239 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 643561013240 ATP binding site [chemical binding]; other site 643561013241 Mg2+ binding site [ion binding]; other site 643561013242 G-X-G motif; other site 643561013243 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 643561013244 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561013245 active site 643561013246 phosphorylation site [posttranslational modification] 643561013247 intermolecular recognition site; other site 643561013248 dimerization interface [polypeptide binding]; other site 643561013249 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 643561013250 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 643561013251 heat shock protein 90; Provisional; Region: PRK05218 643561013252 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 643561013253 ATP binding site [chemical binding]; other site 643561013254 Mg2+ binding site [ion binding]; other site 643561013255 G-X-G motif; other site 643561013256 PAS fold; Region: PAS_4; pfam08448 643561013257 PAS fold; Region: PAS_3; pfam08447 643561013258 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 643561013259 putative active site [active] 643561013260 heme pocket [chemical binding]; other site 643561013261 PAS domain S-box; Region: sensory_box; TIGR00229 643561013262 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 643561013263 dimer interface [polypeptide binding]; other site 643561013264 phosphorylation site [posttranslational modification] 643561013265 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 643561013266 ATP binding site [chemical binding]; other site 643561013267 Mg2+ binding site [ion binding]; other site 643561013268 G-X-G motif; other site 643561013269 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561013270 active site 643561013271 phosphorylation site [posttranslational modification] 643561013272 intermolecular recognition site; other site 643561013273 dimerization interface [polypeptide binding]; other site 643561013274 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 643561013275 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 643561013276 RNA binding surface [nucleotide binding]; other site 643561013277 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 643561013278 active site 643561013279 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 643561013280 dimerization interface [polypeptide binding]; other site 643561013281 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561013282 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561013283 metal binding site [ion binding]; metal-binding site 643561013284 active site 643561013285 I-site; other site 643561013286 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 643561013287 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 643561013288 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 643561013289 dimerization interface [polypeptide binding]; other site 643561013290 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561013291 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561013292 dimer interface [polypeptide binding]; other site 643561013293 putative CheW interface [polypeptide binding]; other site 643561013294 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 643561013295 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 643561013296 ligand binding site [chemical binding]; other site 643561013297 flexible hinge region; other site 643561013298 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 643561013299 non-specific DNA interactions [nucleotide binding]; other site 643561013300 DNA binding site [nucleotide binding] 643561013301 sequence specific DNA binding site [nucleotide binding]; other site 643561013302 putative cAMP binding site [chemical binding]; other site 643561013303 Glycosyl hydrolase family 98; Region: Glyco_hydro_98M; pfam08306 643561013304 Glycosyl hydrolase family 98 C-terminal domain; Region: Glyco_hydro_98C; pfam08307 643561013305 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 643561013306 putative metal binding site [ion binding]; other site 643561013307 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 643561013308 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 643561013309 dimer interface [polypeptide binding]; other site 643561013310 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561013311 catalytic residue [active] 643561013312 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 643561013313 putative catalytic site [active] 643561013314 putative metal binding site [ion binding]; other site 643561013315 putative phosphate binding site [ion binding]; other site 643561013316 cardiolipin synthase 2; Provisional; Region: PRK11263 643561013317 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 643561013318 putative active site [active] 643561013319 catalytic site [active] 643561013320 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 643561013321 putative active site [active] 643561013322 catalytic site [active] 643561013323 Predicted integral membrane protein [Function unknown]; Region: COG0392 643561013324 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 643561013325 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 643561013326 HAMP domain; Region: HAMP; pfam00672 643561013327 dimerization interface [polypeptide binding]; other site 643561013328 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561013329 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561013330 dimer interface [polypeptide binding]; other site 643561013331 putative CheW interface [polypeptide binding]; other site 643561013332 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561013333 aldolase II superfamily protein; Provisional; Region: PRK07044 643561013334 intersubunit interface [polypeptide binding]; other site 643561013335 active site 643561013336 Zn2+ binding site [ion binding]; other site 643561013337 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 643561013338 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 643561013339 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 643561013340 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 643561013341 Ligand binding site [chemical binding]; other site 643561013342 Electron transfer flavoprotein domain; Region: ETF; pfam01012 643561013343 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561013344 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561013345 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 643561013346 CoA-transferase family III; Region: CoA_transf_3; pfam02515 643561013347 enoyl-CoA hydratase; Provisional; Region: PRK07511 643561013348 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 643561013349 substrate binding site [chemical binding]; other site 643561013350 oxyanion hole (OAH) forming residues; other site 643561013351 trimer interface [polypeptide binding]; other site 643561013352 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 643561013353 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 643561013354 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 643561013355 active site 643561013356 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 643561013357 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 643561013358 FAD binding site [chemical binding]; other site 643561013359 substrate binding site [chemical binding]; other site 643561013360 catalytic base [active] 643561013361 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 643561013362 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 643561013363 substrate binding site [chemical binding]; other site 643561013364 oxyanion hole (OAH) forming residues; other site 643561013365 trimer interface [polypeptide binding]; other site 643561013366 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 643561013367 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 643561013368 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 643561013369 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561013370 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561013371 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 643561013372 putative effector binding pocket; other site 643561013373 dimerization interface [polypeptide binding]; other site 643561013374 LysE type translocator; Region: LysE; cl00565 643561013375 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 643561013376 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 643561013377 AsnC family; Region: AsnC_trans_reg; pfam01037 643561013378 heat shock protein HtpX; Provisional; Region: PRK05457 643561013379 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 643561013380 Uncharacterized conserved protein [Function unknown]; Region: COG1432 643561013381 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 643561013382 putative metal binding site [ion binding]; other site 643561013383 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 643561013384 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 643561013385 active site 643561013386 substrate binding pocket [chemical binding]; other site 643561013387 dimer interface [polypeptide binding]; other site 643561013388 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 643561013389 dimerization interface [polypeptide binding]; other site 643561013390 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 643561013391 dimer interface [polypeptide binding]; other site 643561013392 phosphorylation site [posttranslational modification] 643561013393 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 643561013394 ATP binding site [chemical binding]; other site 643561013395 Mg2+ binding site [ion binding]; other site 643561013396 G-X-G motif; other site 643561013397 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 643561013398 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561013399 active site 643561013400 phosphorylation site [posttranslational modification] 643561013401 intermolecular recognition site; other site 643561013402 dimerization interface [polypeptide binding]; other site 643561013403 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 643561013404 DNA binding site [nucleotide binding] 643561013405 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 643561013406 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 643561013407 DevC protein; Region: devC; TIGR01185 643561013408 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 643561013409 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 643561013410 Walker A/P-loop; other site 643561013411 ATP binding site [chemical binding]; other site 643561013412 Q-loop/lid; other site 643561013413 ABC transporter signature motif; other site 643561013414 Walker B; other site 643561013415 D-loop; other site 643561013416 H-loop/switch region; other site 643561013417 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 643561013418 HlyD family secretion protein; Region: HlyD_3; pfam13437 643561013419 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 643561013420 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 643561013421 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 643561013422 thiamine/molybdopterin biosynthesis MoeB-like protein; Provisional; Region: PRK12475 643561013423 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 643561013424 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 643561013425 catalytic residue [active] 643561013426 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 643561013427 active site 643561013428 metal binding site [ion binding]; metal-binding site 643561013429 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 643561013430 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 643561013431 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 643561013432 inhibitor-cofactor binding pocket; inhibition site 643561013433 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561013434 catalytic residue [active] 643561013435 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 643561013436 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 643561013437 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 643561013438 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643561013439 Walker A/P-loop; other site 643561013440 ATP binding site [chemical binding]; other site 643561013441 Q-loop/lid; other site 643561013442 ABC transporter signature motif; other site 643561013443 Walker B; other site 643561013444 D-loop; other site 643561013445 H-loop/switch region; other site 643561013446 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 643561013447 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643561013448 Walker A/P-loop; other site 643561013449 ATP binding site [chemical binding]; other site 643561013450 Q-loop/lid; other site 643561013451 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 643561013452 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 643561013453 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 643561013454 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 643561013455 putative ligand binding site [chemical binding]; other site 643561013456 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 643561013457 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 643561013458 trimer interface [polypeptide binding]; other site 643561013459 eyelet of channel; other site 643561013460 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 643561013461 putative substrate translocation pore; other site 643561013462 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 643561013463 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 643561013464 putative catalytic residue [active] 643561013465 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 643561013466 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 643561013467 putative deacylase active site [active] 643561013468 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 643561013469 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 643561013470 active site 643561013471 catalytic residues [active] 643561013472 metal binding site [ion binding]; metal-binding site 643561013473 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 643561013474 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 643561013475 putative ligand binding site [chemical binding]; other site 643561013476 NAD binding site [chemical binding]; other site 643561013477 dimerization interface [polypeptide binding]; other site 643561013478 catalytic site [active] 643561013479 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 643561013480 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 643561013481 ATP-grasp domain; Region: ATP-grasp_4; cl17255 643561013482 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 643561013483 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 643561013484 carboxyltransferase (CT) interaction site; other site 643561013485 biotinylation site [posttranslational modification]; other site 643561013486 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 643561013487 enoyl-CoA hydratase; Provisional; Region: PRK05995 643561013488 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 643561013489 substrate binding site [chemical binding]; other site 643561013490 oxyanion hole (OAH) forming residues; other site 643561013491 trimer interface [polypeptide binding]; other site 643561013492 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 643561013493 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 643561013494 AMP-binding domain protein; Validated; Region: PRK08315 643561013495 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 643561013496 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 643561013497 acyl-activating enzyme (AAE) consensus motif; other site 643561013498 putative AMP binding site [chemical binding]; other site 643561013499 putative active site [active] 643561013500 putative CoA binding site [chemical binding]; other site 643561013501 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 643561013502 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 643561013503 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 643561013504 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 643561013505 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 643561013506 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643561013507 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 643561013508 dimer interface [polypeptide binding]; other site 643561013509 phosphorylation site [posttranslational modification] 643561013510 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 643561013511 ATP binding site [chemical binding]; other site 643561013512 Mg2+ binding site [ion binding]; other site 643561013513 G-X-G motif; other site 643561013514 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 643561013515 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561013516 active site 643561013517 phosphorylation site [posttranslational modification] 643561013518 intermolecular recognition site; other site 643561013519 dimerization interface [polypeptide binding]; other site 643561013520 hypothetical protein; Provisional; Region: PRK01842 643561013521 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 643561013522 Predicted membrane protein [Function unknown]; Region: COG2323 643561013523 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 643561013524 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 643561013525 active site 643561013526 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 643561013527 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 643561013528 C factor cell-cell signaling protein; Provisional; Region: PRK09009 643561013529 NADP binding site [chemical binding]; other site 643561013530 homodimer interface [polypeptide binding]; other site 643561013531 active site 643561013532 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 643561013533 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 643561013534 dimer interface [polypeptide binding]; other site 643561013535 active site 643561013536 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 643561013537 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 643561013538 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 643561013539 active site clefts [active] 643561013540 zinc binding site [ion binding]; other site 643561013541 dimer interface [polypeptide binding]; other site 643561013542 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 643561013543 isovaleryl-CoA dehydrogenase; Region: PLN02519 643561013544 substrate binding site [chemical binding]; other site 643561013545 FAD binding site [chemical binding]; other site 643561013546 catalytic base [active] 643561013547 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 643561013548 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 643561013549 DNA binding residues [nucleotide binding] 643561013550 putative dimer interface [polypeptide binding]; other site 643561013551 ABC transporter ATPase component; Reviewed; Region: PRK11147 643561013552 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643561013553 Walker A/P-loop; other site 643561013554 ATP binding site [chemical binding]; other site 643561013555 Q-loop/lid; other site 643561013556 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 643561013557 ABC transporter signature motif; other site 643561013558 Walker B; other site 643561013559 ABC transporter; Region: ABC_tran_2; pfam12848 643561013560 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 643561013561 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 643561013562 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561013563 active site 643561013564 phosphorylation site [posttranslational modification] 643561013565 intermolecular recognition site; other site 643561013566 dimerization interface [polypeptide binding]; other site 643561013567 CheB methylesterase; Region: CheB_methylest; pfam01339 643561013568 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13487 643561013569 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 643561013570 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 643561013571 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 643561013572 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 643561013573 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 643561013574 putative binding surface; other site 643561013575 active site 643561013576 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 643561013577 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 643561013578 ATP binding site [chemical binding]; other site 643561013579 Mg2+ binding site [ion binding]; other site 643561013580 G-X-G motif; other site 643561013581 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 643561013582 Response regulator receiver domain; Region: Response_reg; pfam00072 643561013583 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561013584 active site 643561013585 phosphorylation site [posttranslational modification] 643561013586 intermolecular recognition site; other site 643561013587 dimerization interface [polypeptide binding]; other site 643561013588 Response regulator receiver domain; Region: Response_reg; pfam00072 643561013589 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561013590 active site 643561013591 phosphorylation site [posttranslational modification] 643561013592 intermolecular recognition site; other site 643561013593 dimerization interface [polypeptide binding]; other site 643561013594 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 643561013595 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 643561013596 ATP binding site [chemical binding]; other site 643561013597 Mg2+ binding site [ion binding]; other site 643561013598 G-X-G motif; other site 643561013599 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 643561013600 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561013601 active site 643561013602 phosphorylation site [posttranslational modification] 643561013603 intermolecular recognition site; other site 643561013604 dimerization interface [polypeptide binding]; other site 643561013605 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 643561013606 DNA binding residues [nucleotide binding] 643561013607 dimerization interface [polypeptide binding]; other site 643561013608 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 643561013609 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 643561013610 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 643561013611 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 643561013612 flagellar motor switch protein; Validated; Region: fliN; PRK05698 643561013613 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 643561013614 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 643561013615 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 643561013616 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 643561013617 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 643561013618 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 643561013619 Flagellar FliJ protein; Region: FliJ; pfam02050 643561013620 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 643561013621 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 643561013622 Walker A motif/ATP binding site; other site 643561013623 Walker B motif; other site 643561013624 Flagellar assembly protein FliH; Region: FliH; pfam02108 643561013625 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 643561013626 MgtE intracellular N domain; Region: MgtE_N; cl15244 643561013627 FliG C-terminal domain; Region: FliG_C; pfam01706 643561013628 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 643561013629 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 643561013630 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 643561013631 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 643561013632 Flagellar protein FliT; Region: FliT; pfam05400 643561013633 Flagellar protein FliS; Region: FliS; cl00654 643561013634 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 643561013635 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 643561013636 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 643561013637 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 643561013638 flagellin; Provisional; Region: PRK12806 643561013639 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 643561013640 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 643561013641 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 643561013642 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 643561013643 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 643561013644 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 643561013645 inhibitor-cofactor binding pocket; inhibition site 643561013646 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561013647 catalytic residue [active] 643561013648 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 643561013649 Methyltransferase domain; Region: Methyltransf_23; pfam13489 643561013650 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 643561013651 S-adenosylmethionine binding site [chemical binding]; other site 643561013652 Methyltransferase domain; Region: Methyltransf_23; pfam13489 643561013653 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 643561013654 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 643561013655 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 643561013656 active site 643561013657 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 643561013658 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 643561013659 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 643561013660 Probable Catalytic site; other site 643561013661 metal-binding site 643561013662 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 643561013663 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 643561013664 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 643561013665 flagellar motor protein MotA; Validated; Region: PRK09110 643561013666 flagellar motor protein MotB; Validated; Region: motB; PRK09041 643561013667 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 643561013668 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 643561013669 ligand binding site [chemical binding]; other site 643561013670 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 643561013671 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561013672 active site 643561013673 phosphorylation site [posttranslational modification] 643561013674 intermolecular recognition site; other site 643561013675 dimerization interface [polypeptide binding]; other site 643561013676 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 643561013677 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 643561013678 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 643561013679 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 643561013680 FHIPEP family; Region: FHIPEP; pfam00771 643561013681 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 643561013682 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 643561013683 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 643561013684 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 643561013685 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 643561013686 DNA binding residues [nucleotide binding] 643561013687 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 643561013688 SAF-like; Region: SAF_2; pfam13144 643561013689 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 643561013690 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 643561013691 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 643561013692 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 643561013693 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 643561013694 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 643561013695 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 643561013696 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 643561013697 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 643561013698 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 643561013699 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 643561013700 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 643561013701 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 643561013702 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 643561013703 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 643561013704 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 643561013705 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 643561013706 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 643561013707 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 643561013708 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 643561013709 Flagellar L-ring protein; Region: FlgH; pfam02107 643561013710 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 643561013711 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 643561013712 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 643561013713 Rod binding protein; Region: Rod-binding; cl01626 643561013714 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 643561013715 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 643561013716 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 643561013717 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 643561013718 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 643561013719 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 643561013720 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 643561013721 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 643561013722 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643561013723 DNA-binding site [nucleotide binding]; DNA binding site 643561013724 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 643561013725 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561013726 homodimer interface [polypeptide binding]; other site 643561013727 catalytic residue [active] 643561013728 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 643561013729 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 643561013730 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 643561013731 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561013732 homodimer interface [polypeptide binding]; other site 643561013733 catalytic residue [active] 643561013734 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 643561013735 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 643561013736 putative C-terminal domain interface [polypeptide binding]; other site 643561013737 putative GSH binding site (G-site) [chemical binding]; other site 643561013738 putative dimer interface [polypeptide binding]; other site 643561013739 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 643561013740 putative N-terminal domain interface [polypeptide binding]; other site 643561013741 putative dimer interface [polypeptide binding]; other site 643561013742 putative substrate binding pocket (H-site) [chemical binding]; other site 643561013743 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 643561013744 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 643561013745 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 643561013746 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 643561013747 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 643561013748 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 643561013749 tetramer interface [polypeptide binding]; other site 643561013750 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561013751 catalytic residue [active] 643561013752 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 643561013753 catalytic core [active] 643561013754 Creatinine amidohydrolase; Region: Creatininase; pfam02633 643561013755 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 643561013756 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561013757 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561013758 dimer interface [polypeptide binding]; other site 643561013759 putative CheW interface [polypeptide binding]; other site 643561013760 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 643561013761 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 643561013762 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 643561013763 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 643561013764 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 643561013765 N-terminal plug; other site 643561013766 ligand-binding site [chemical binding]; other site 643561013767 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 643561013768 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 643561013769 LysR family transcriptional regulator; Provisional; Region: PRK14997 643561013770 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561013771 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 643561013772 putative effector binding pocket; other site 643561013773 dimerization interface [polypeptide binding]; other site 643561013774 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 643561013775 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 643561013776 putative NAD(P) binding site [chemical binding]; other site 643561013777 dimer interface [polypeptide binding]; other site 643561013778 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 643561013779 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 643561013780 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 643561013781 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 643561013782 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 643561013783 DsbD alpha interface [polypeptide binding]; other site 643561013784 catalytic residues [active] 643561013785 Uncharacterized conserved protein [Function unknown]; Region: COG1262 643561013786 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 643561013787 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643561013788 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643561013789 Major Facilitator Superfamily; Region: MFS_1; pfam07690 643561013790 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 643561013791 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 643561013792 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 643561013793 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 643561013794 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561013795 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 643561013796 dimerization interface [polypeptide binding]; other site 643561013797 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 643561013798 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 643561013799 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 643561013800 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 643561013801 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 643561013802 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 643561013803 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 643561013804 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 643561013805 Sulfatase; Region: Sulfatase; pfam00884 643561013806 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 643561013807 MarR family; Region: MarR_2; cl17246 643561013808 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 643561013809 substrate binding site [chemical binding]; other site 643561013810 active site 643561013811 primosome assembly protein PriA; Validated; Region: PRK05580 643561013812 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 643561013813 ATP binding site [chemical binding]; other site 643561013814 putative Mg++ binding site [ion binding]; other site 643561013815 helicase superfamily c-terminal domain; Region: HELICc; smart00490 643561013816 Membrane transport protein; Region: Mem_trans; cl09117 643561013817 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 643561013818 Part of AAA domain; Region: AAA_19; pfam13245 643561013819 Family description; Region: UvrD_C_2; pfam13538 643561013820 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 643561013821 substrate binding site [chemical binding]; other site 643561013822 dimerization interface [polypeptide binding]; other site 643561013823 active site 643561013824 calcium binding site [ion binding]; other site 643561013825 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 643561013826 Ligand Binding Site [chemical binding]; other site 643561013827 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 643561013828 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 643561013829 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 643561013830 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 643561013831 putative GSH binding site (G-site) [chemical binding]; other site 643561013832 putative C-terminal domain interface [polypeptide binding]; other site 643561013833 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 643561013834 putative N-terminal domain interface [polypeptide binding]; other site 643561013835 putative dimer interface [polypeptide binding]; other site 643561013836 putative substrate binding pocket (H-site) [chemical binding]; other site 643561013837 short chain dehydrogenase; Provisional; Region: PRK06701 643561013838 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 643561013839 NAD binding site [chemical binding]; other site 643561013840 metal binding site [ion binding]; metal-binding site 643561013841 active site 643561013842 CheW-like domain; Region: CheW; pfam01584 643561013843 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 643561013844 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 643561013845 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 643561013846 PAS domain; Region: PAS_9; pfam13426 643561013847 putative active site [active] 643561013848 heme pocket [chemical binding]; other site 643561013849 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 643561013850 PAS domain; Region: PAS_9; pfam13426 643561013851 putative active site [active] 643561013852 heme pocket [chemical binding]; other site 643561013853 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 643561013854 PAS domain; Region: PAS_9; pfam13426 643561013855 putative active site [active] 643561013856 heme pocket [chemical binding]; other site 643561013857 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561013858 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561013859 dimer interface [polypeptide binding]; other site 643561013860 putative CheW interface [polypeptide binding]; other site 643561013861 Double zinc ribbon; Region: DZR; pfam12773 643561013862 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 643561013863 yiaA/B two helix domain; Region: YiaAB; cl01759 643561013864 yiaA/B two helix domain; Region: YiaAB; cl01759 643561013865 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 643561013866 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 643561013867 putative DNA binding site [nucleotide binding]; other site 643561013868 putative Zn2+ binding site [ion binding]; other site 643561013869 AsnC family; Region: AsnC_trans_reg; pfam01037 643561013870 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 643561013871 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 643561013872 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561013873 catalytic residue [active] 643561013874 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561013875 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 643561013876 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561013877 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561013878 dimer interface [polypeptide binding]; other site 643561013879 putative CheW interface [polypeptide binding]; other site 643561013880 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 643561013881 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 643561013882 putative acyl-acceptor binding pocket; other site 643561013883 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 643561013884 non-specific DNA binding site [nucleotide binding]; other site 643561013885 salt bridge; other site 643561013886 sequence-specific DNA binding site [nucleotide binding]; other site 643561013887 Predicted integral membrane protein [Function unknown]; Region: COG5616 643561013888 Predicted transcriptional regulator [Transcription]; Region: COG2932 643561013889 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 643561013890 Catalytic site [active] 643561013891 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 643561013892 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561013893 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 643561013894 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 643561013895 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 643561013896 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 643561013897 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 643561013898 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 643561013899 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 643561013900 hydroxyglutarate oxidase; Provisional; Region: PRK11728 643561013901 FIST N domain; Region: FIST; smart00897 643561013902 FIST C domain; Region: FIST_C; pfam10442 643561013903 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 643561013904 IHF dimer interface [polypeptide binding]; other site 643561013905 IHF - DNA interface [nucleotide binding]; other site 643561013906 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 643561013907 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 643561013908 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 643561013909 Predicted membrane protein [Function unknown]; Region: COG4325 643561013910 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 643561013911 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643561013912 NAD(P) binding site [chemical binding]; other site 643561013913 active site 643561013914 NMT1/THI5 like; Region: NMT1; pfam09084 643561013915 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 643561013916 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 643561013917 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 643561013918 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643561013919 Walker A/P-loop; other site 643561013920 ATP binding site [chemical binding]; other site 643561013921 Q-loop/lid; other site 643561013922 ABC transporter signature motif; other site 643561013923 Walker B; other site 643561013924 D-loop; other site 643561013925 H-loop/switch region; other site 643561013926 Acyl-CoA reductase LuxC; Region: ALDH_Acyl-CoA-Red_LuxC; cd07080 643561013927 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 643561013928 putative catalytic cysteine [active] 643561013929 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 643561013930 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 643561013931 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 643561013932 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 643561013933 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 643561013934 non-specific DNA binding site [nucleotide binding]; other site 643561013935 salt bridge; other site 643561013936 sequence-specific DNA binding site [nucleotide binding]; other site 643561013937 HipA N-terminal domain; Region: Couple_hipA; pfam13657 643561013938 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 643561013939 HipA-like N-terminal domain; Region: HipA_N; pfam07805 643561013940 HipA-like C-terminal domain; Region: HipA_C; pfam07804 643561013941 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 643561013942 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 643561013943 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 643561013944 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 643561013945 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 643561013946 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 643561013947 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 643561013948 DNA binding residues [nucleotide binding] 643561013949 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 643561013950 ATP binding site [chemical binding]; other site 643561013951 Mg2+ binding site [ion binding]; other site 643561013952 G-X-G motif; other site 643561013953 Z1 domain; Region: Z1; pfam10593 643561013954 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 643561013955 AIPR protein; Region: AIPR; pfam10592 643561013956 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 643561013957 additional DNA contacts [nucleotide binding]; other site 643561013958 mismatch recognition site; other site 643561013959 active site 643561013960 zinc binding site [ion binding]; other site 643561013961 DNA intercalation site [nucleotide binding]; other site 643561013962 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 643561013963 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 643561013964 DNA binding site [nucleotide binding] 643561013965 substrate interaction site [chemical binding]; other site 643561013966 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 643561013967 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 643561013968 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 643561013969 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 643561013970 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 643561013971 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 643561013972 E-class dimer interface [polypeptide binding]; other site 643561013973 P-class dimer interface [polypeptide binding]; other site 643561013974 active site 643561013975 Cu2+ binding site [ion binding]; other site 643561013976 Zn2+ binding site [ion binding]; other site 643561013977 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 643561013978 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 643561013979 putative molybdopterin cofactor binding site [chemical binding]; other site 643561013980 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 643561013981 putative molybdopterin cofactor binding site; other site 643561013982 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 643561013983 putative heme binding pocket [chemical binding]; other site 643561013984 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 643561013985 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 643561013986 non-specific DNA binding site [nucleotide binding]; other site 643561013987 salt bridge; other site 643561013988 sequence-specific DNA binding site [nucleotide binding]; other site 643561013989 HipA N-terminal domain; Region: Couple_hipA; pfam13657 643561013990 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 643561013991 HipA-like N-terminal domain; Region: HipA_N; pfam07805 643561013992 HipA-like C-terminal domain; Region: HipA_C; pfam07804 643561013993 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 643561013994 Major Facilitator Superfamily; Region: MFS_1; pfam07690 643561013995 putative substrate translocation pore; other site 643561013996 Response regulator receiver domain; Region: Response_reg; pfam00072 643561013997 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561013998 active site 643561013999 phosphorylation site [posttranslational modification] 643561014000 intermolecular recognition site; other site 643561014001 dimerization interface [polypeptide binding]; other site 643561014002 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 643561014003 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 643561014004 dimerization interface [polypeptide binding]; other site 643561014005 PAS domain; Region: PAS; smart00091 643561014006 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 643561014007 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 643561014008 dimer interface [polypeptide binding]; other site 643561014009 phosphorylation site [posttranslational modification] 643561014010 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 643561014011 ATP binding site [chemical binding]; other site 643561014012 Mg2+ binding site [ion binding]; other site 643561014013 G-X-G motif; other site 643561014014 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 643561014015 16S rRNA methyltransferase B; Provisional; Region: PRK10901 643561014016 NusB family; Region: NusB; pfam01029 643561014017 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 643561014018 S-adenosylmethionine binding site [chemical binding]; other site 643561014019 LemA family; Region: LemA; cl00742 643561014020 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 643561014021 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 643561014022 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 643561014023 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 643561014024 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 643561014025 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 643561014026 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 643561014027 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 643561014028 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 643561014029 DNA binding site [nucleotide binding] 643561014030 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 643561014031 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 643561014032 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 643561014033 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 643561014034 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 643561014035 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 643561014036 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 643561014037 RPB3 interaction site [polypeptide binding]; other site 643561014038 RPB1 interaction site [polypeptide binding]; other site 643561014039 RPB11 interaction site [polypeptide binding]; other site 643561014040 RPB10 interaction site [polypeptide binding]; other site 643561014041 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 643561014042 peripheral dimer interface [polypeptide binding]; other site 643561014043 core dimer interface [polypeptide binding]; other site 643561014044 L10 interface [polypeptide binding]; other site 643561014045 L11 interface [polypeptide binding]; other site 643561014046 putative EF-Tu interaction site [polypeptide binding]; other site 643561014047 putative EF-G interaction site [polypeptide binding]; other site 643561014048 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 643561014049 23S rRNA interface [nucleotide binding]; other site 643561014050 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 643561014051 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 643561014052 mRNA/rRNA interface [nucleotide binding]; other site 643561014053 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 643561014054 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 643561014055 23S rRNA interface [nucleotide binding]; other site 643561014056 L7/L12 interface [polypeptide binding]; other site 643561014057 putative thiostrepton binding site; other site 643561014058 L25 interface [polypeptide binding]; other site 643561014059 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 643561014060 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 643561014061 putative homodimer interface [polypeptide binding]; other site 643561014062 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 643561014063 heterodimer interface [polypeptide binding]; other site 643561014064 homodimer interface [polypeptide binding]; other site 643561014065 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 643561014066 elongation factor Tu; Reviewed; Region: PRK00049 643561014067 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 643561014068 G1 box; other site 643561014069 GEF interaction site [polypeptide binding]; other site 643561014070 GTP/Mg2+ binding site [chemical binding]; other site 643561014071 Switch I region; other site 643561014072 G2 box; other site 643561014073 G3 box; other site 643561014074 Switch II region; other site 643561014075 G4 box; other site 643561014076 G5 box; other site 643561014077 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 643561014078 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 643561014079 Antibiotic Binding Site [chemical binding]; other site 643561014080 glutathione synthetase; Provisional; Region: PRK05246 643561014081 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 643561014082 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 643561014083 Benzoate membrane transport protein; Region: BenE; pfam03594 643561014084 benzoate transporter; Region: benE; TIGR00843 643561014085 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 643561014086 potassium uptake protein; Region: kup; TIGR00794 643561014087 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 643561014088 Glutamate-cysteine ligase; Region: GshA; pfam08886 643561014089 Cation transport protein; Region: TrkH; cl17365 643561014090 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 643561014091 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 643561014092 TrkA-N domain; Region: TrkA_N; pfam02254 643561014093 TrkA-C domain; Region: TrkA_C; pfam02080 643561014094 TrkA-N domain; Region: TrkA_N; pfam02254 643561014095 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 643561014096 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 643561014097 putative catalytic cysteine [active] 643561014098 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 643561014099 Predicted amidohydrolase [General function prediction only]; Region: COG0388 643561014100 putative active site [active] 643561014101 catalytic triad [active] 643561014102 putative dimer interface [polypeptide binding]; other site 643561014103 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561014104 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561014105 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_2; cd08464 643561014106 putative substrate binding pocket [chemical binding]; other site 643561014107 putative dimerization interface [polypeptide binding]; other site 643561014108 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 643561014109 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 643561014110 Lipopolysaccharide-assembly; Region: LptE; pfam04390 643561014111 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 643561014112 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 643561014113 HIGH motif; other site 643561014114 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 643561014115 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 643561014116 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 643561014117 active site 643561014118 KMSKS motif; other site 643561014119 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 643561014120 tRNA binding surface [nucleotide binding]; other site 643561014121 Predicted transcriptional regulator [Transcription]; Region: COG2932 643561014122 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 643561014123 Catalytic site [active] 643561014124 PAS domain; Region: PAS_9; pfam13426 643561014125 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561014126 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561014127 metal binding site [ion binding]; metal-binding site 643561014128 active site 643561014129 I-site; other site 643561014130 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 643561014131 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 643561014132 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 643561014133 dihydrodipicolinate reductase; Provisional; Region: PRK00048 643561014134 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 643561014135 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 643561014136 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 643561014137 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 643561014138 ferric uptake regulator; Provisional; Region: fur; PRK09462 643561014139 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 643561014140 metal binding site 2 [ion binding]; metal-binding site 643561014141 putative DNA binding helix; other site 643561014142 metal binding site 1 [ion binding]; metal-binding site 643561014143 dimer interface [polypeptide binding]; other site 643561014144 structural Zn2+ binding site [ion binding]; other site 643561014145 HPr kinase/phosphorylase; Provisional; Region: PRK05428 643561014146 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 643561014147 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 643561014148 Hpr binding site; other site 643561014149 active site 643561014150 homohexamer subunit interaction site [polypeptide binding]; other site 643561014151 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 643561014152 active site 643561014153 phosphorylation site [posttranslational modification] 643561014154 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 643561014155 30S subunit binding site; other site 643561014156 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 643561014157 ATP binding site [chemical binding]; other site 643561014158 active site 643561014159 substrate binding site [chemical binding]; other site 643561014160 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 643561014161 META domain; Region: META; pfam03724 643561014162 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 643561014163 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 643561014164 AIR carboxylase; Region: AIRC; cl00310 643561014165 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 643561014166 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 643561014167 NAD binding site [chemical binding]; other site 643561014168 ATP-grasp domain; Region: ATP-grasp; pfam02222 643561014169 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 643561014170 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 643561014171 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 643561014172 active site 643561014173 catalytic triad [active] 643561014174 oxyanion hole [active] 643561014175 OmpW family; Region: OmpW; cl17427 643561014176 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 643561014177 active site 643561014178 catalytic triad [active] 643561014179 oxyanion hole [active] 643561014180 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 643561014181 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 643561014182 Glycoprotease family; Region: Peptidase_M22; pfam00814 643561014183 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 643561014184 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 643561014185 Coenzyme A binding pocket [chemical binding]; other site 643561014186 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 643561014187 active site 643561014188 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 643561014189 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 643561014190 Cl binding site [ion binding]; other site 643561014191 oligomer interface [polypeptide binding]; other site 643561014192 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 643561014193 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 643561014194 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 643561014195 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 643561014196 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 643561014197 acyl-activating enzyme (AAE) consensus motif; other site 643561014198 putative AMP binding site [chemical binding]; other site 643561014199 putative active site [active] 643561014200 putative CoA binding site [chemical binding]; other site 643561014201 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 643561014202 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 643561014203 intersubunit interface [polypeptide binding]; other site 643561014204 active site 643561014205 zinc binding site [ion binding]; other site 643561014206 Na+ binding site [ion binding]; other site 643561014207 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 643561014208 dimer interface [polypeptide binding]; other site 643561014209 phosphorylation site [posttranslational modification] 643561014210 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 643561014211 ATP binding site [chemical binding]; other site 643561014212 Mg2+ binding site [ion binding]; other site 643561014213 G-X-G motif; other site 643561014214 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 643561014215 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561014216 active site 643561014217 phosphorylation site [posttranslational modification] 643561014218 intermolecular recognition site; other site 643561014219 dimerization interface [polypeptide binding]; other site 643561014220 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 643561014221 DNA binding site [nucleotide binding] 643561014222 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 643561014223 active site 643561014224 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 643561014225 active site 643561014226 pyruvate kinase; Provisional; Region: PRK05826 643561014227 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 643561014228 domain interfaces; other site 643561014229 active site 643561014230 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 643561014231 dimer interface [polypeptide binding]; other site 643561014232 phosphorylation site [posttranslational modification] 643561014233 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 643561014234 ATP binding site [chemical binding]; other site 643561014235 Mg2+ binding site [ion binding]; other site 643561014236 G-X-G motif; other site 643561014237 osmolarity response regulator; Provisional; Region: ompR; PRK09468 643561014238 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561014239 active site 643561014240 phosphorylation site [posttranslational modification] 643561014241 intermolecular recognition site; other site 643561014242 dimerization interface [polypeptide binding]; other site 643561014243 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 643561014244 DNA binding site [nucleotide binding] 643561014245 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 643561014246 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 643561014247 intersubunit interface [polypeptide binding]; other site 643561014248 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 643561014249 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 643561014250 ABC-ATPase subunit interface; other site 643561014251 dimer interface [polypeptide binding]; other site 643561014252 putative PBP binding regions; other site 643561014253 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 643561014254 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 643561014255 Walker A/P-loop; other site 643561014256 ATP binding site [chemical binding]; other site 643561014257 Q-loop/lid; other site 643561014258 ABC transporter signature motif; other site 643561014259 Walker B; other site 643561014260 D-loop; other site 643561014261 H-loop/switch region; other site 643561014262 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 643561014263 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 643561014264 proline aminopeptidase P II; Provisional; Region: PRK10879 643561014265 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 643561014266 active site 643561014267 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 643561014268 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 643561014269 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 643561014270 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 643561014271 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 643561014272 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 643561014273 Substrate binding site; other site 643561014274 metal-binding site 643561014275 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; pfam02675 643561014276 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 643561014277 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 643561014278 TPP-binding site [chemical binding]; other site 643561014279 dimer interface [polypeptide binding]; other site 643561014280 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 643561014281 PYR/PP interface [polypeptide binding]; other site 643561014282 dimer interface [polypeptide binding]; other site 643561014283 TPP binding site [chemical binding]; other site 643561014284 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 643561014285 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 643561014286 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 643561014287 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 643561014288 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 643561014289 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561014290 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561014291 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 643561014292 dimerization interface [polypeptide binding]; other site 643561014293 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 643561014294 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 643561014295 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 643561014296 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 643561014297 ligand binding site [chemical binding]; other site 643561014298 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 643561014299 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 643561014300 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 643561014301 FeS/SAM binding site; other site 643561014302 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 643561014303 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 643561014304 30S subunit binding site; other site 643561014305 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 643561014306 Peptidase C26; Region: Peptidase_C26; pfam07722 643561014307 catalytic triad [active] 643561014308 Spore Coat Protein U domain; Region: SCPU; pfam05229 643561014309 Spore Coat Protein U domain; Region: SCPU; cl02253 643561014310 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 643561014311 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 643561014312 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 643561014313 PapC N-terminal domain; Region: PapC_N; pfam13954 643561014314 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 643561014315 PapC C-terminal domain; Region: PapC_C; pfam13953 643561014316 Spore Coat Protein U domain; Region: SCPU; cl02253 643561014317 Spore Coat Protein U domain; Region: SCPU; pfam05229 643561014318 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 643561014319 Pirin-related protein [General function prediction only]; Region: COG1741 643561014320 Pirin; Region: Pirin; pfam02678 643561014321 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 643561014322 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 643561014323 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; cl15777 643561014324 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 643561014325 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 643561014326 Mechanosensitive ion channel; Region: MS_channel; pfam00924 643561014327 Sulfatase; Region: Sulfatase; cl17466 643561014328 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 643561014329 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 643561014330 putative NAD(P) binding site [chemical binding]; other site 643561014331 active site 643561014332 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 643561014333 Nuclease-related domain; Region: NERD; pfam08378 643561014334 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 643561014335 ATP binding site [chemical binding]; other site 643561014336 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 643561014337 putative Mg++ binding site [ion binding]; other site 643561014338 Family description; Region: UvrD_C_2; pfam13538 643561014339 Methyltransferase domain; Region: Methyltransf_23; pfam13489 643561014340 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 643561014341 S-adenosylmethionine binding site [chemical binding]; other site 643561014342 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 643561014343 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 643561014344 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 643561014345 Yersinia/Haemophilus virulence surface antigen; Region: Peptidase_C58; cl04145 643561014346 RDD family; Region: RDD; pfam06271 643561014347 Fic family protein [Function unknown]; Region: COG3177 643561014348 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 643561014349 Fic/DOC family; Region: Fic; pfam02661 643561014350 DNA topoisomerase III; Validated; Region: PRK08173 643561014351 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 643561014352 active site 643561014353 putative interdomain interaction site [polypeptide binding]; other site 643561014354 putative metal-binding site [ion binding]; other site 643561014355 putative nucleotide binding site [chemical binding]; other site 643561014356 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 643561014357 domain I; other site 643561014358 DNA binding groove [nucleotide binding] 643561014359 phosphate binding site [ion binding]; other site 643561014360 domain II; other site 643561014361 domain III; other site 643561014362 nucleotide binding site [chemical binding]; other site 643561014363 catalytic site [active] 643561014364 domain IV; other site 643561014365 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 643561014366 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 643561014367 SWI complex, BAF60b domains; Region: SWIB; smart00151 643561014368 Proteins containing SET domain [General function prediction only]; Region: COG2940 643561014369 SET domain; Region: SET; pfam00856 643561014370 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 643561014371 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 643561014372 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 643561014373 Leucine rich repeat; Region: LRR_8; pfam13855 643561014374 Leucine rich repeat; Region: LRR_8; pfam13855 643561014375 Leucine rich repeat; Region: LRR_8; pfam13855 643561014376 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 643561014377 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561014378 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561014379 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 643561014380 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 643561014381 dimerization interface [polypeptide binding]; other site 643561014382 substrate binding pocket [chemical binding]; other site 643561014383 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 643561014384 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 643561014385 ligand binding site [chemical binding]; other site 643561014386 flexible hinge region; other site 643561014387 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 643561014388 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 643561014389 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 643561014390 catalytic loop [active] 643561014391 iron binding site [ion binding]; other site 643561014392 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 643561014393 cyclase homology domain; Region: CHD; cd07302 643561014394 nucleotidyl binding site; other site 643561014395 metal binding site [ion binding]; metal-binding site 643561014396 dimer interface [polypeptide binding]; other site 643561014397 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 643561014398 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 643561014399 dimer interface [polypeptide binding]; other site 643561014400 phosphorylation site [posttranslational modification] 643561014401 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 643561014402 ATP binding site [chemical binding]; other site 643561014403 Mg2+ binding site [ion binding]; other site 643561014404 G-X-G motif; other site 643561014405 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 643561014406 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561014407 active site 643561014408 phosphorylation site [posttranslational modification] 643561014409 intermolecular recognition site; other site 643561014410 dimerization interface [polypeptide binding]; other site 643561014411 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 643561014412 DNA binding site [nucleotide binding] 643561014413 Transcriptional regulators [Transcription]; Region: MarR; COG1846 643561014414 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 643561014415 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 643561014416 hexamer interface [polypeptide binding]; other site 643561014417 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 643561014418 Walker A motif; other site 643561014419 ATP binding site [chemical binding]; other site 643561014420 Walker B motif; other site 643561014421 RecX family; Region: RecX; cl00936 643561014422 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 643561014423 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 643561014424 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 643561014425 Protein export membrane protein; Region: SecD_SecF; pfam02355 643561014426 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 643561014427 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 643561014428 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 643561014429 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 643561014430 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 643561014431 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 643561014432 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 643561014433 dimer interface [polypeptide binding]; other site 643561014434 PYR/PP interface [polypeptide binding]; other site 643561014435 TPP binding site [chemical binding]; other site 643561014436 substrate binding site [chemical binding]; other site 643561014437 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 643561014438 TPP-binding site; other site 643561014439 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 643561014440 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 643561014441 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 643561014442 putative DNA binding site [nucleotide binding]; other site 643561014443 putative Zn2+ binding site [ion binding]; other site 643561014444 AsnC family; Region: AsnC_trans_reg; pfam01037 643561014445 Transmembrane secretion effector; Region: MFS_3; pfam05977 643561014446 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 643561014447 putative substrate translocation pore; other site 643561014448 MltA specific insert domain; Region: MltA; smart00925 643561014449 3D domain; Region: 3D; pfam06725 643561014450 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 643561014451 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 643561014452 ligand binding site [chemical binding]; other site 643561014453 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 643561014454 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561014455 active site 643561014456 phosphorylation site [posttranslational modification] 643561014457 intermolecular recognition site; other site 643561014458 dimerization interface [polypeptide binding]; other site 643561014459 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 643561014460 DNA binding residues [nucleotide binding] 643561014461 dimerization interface [polypeptide binding]; other site 643561014462 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 643561014463 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 643561014464 putative active site [active] 643561014465 heme pocket [chemical binding]; other site 643561014466 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 643561014467 dimer interface [polypeptide binding]; other site 643561014468 phosphorylation site [posttranslational modification] 643561014469 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 643561014470 ATP binding site [chemical binding]; other site 643561014471 Mg2+ binding site [ion binding]; other site 643561014472 G-X-G motif; other site 643561014473 nitrilase; Region: PLN02798 643561014474 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 643561014475 putative active site [active] 643561014476 catalytic triad [active] 643561014477 dimer interface [polypeptide binding]; other site 643561014478 TIGR02099 family protein; Region: TIGR02099 643561014479 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 643561014480 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 643561014481 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 643561014482 metal binding triad; other site 643561014483 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 643561014484 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 643561014485 metal binding triad; other site 643561014486 Condensation domain; Region: Condensation; pfam00668 643561014487 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 643561014488 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 643561014489 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 643561014490 acyl-activating enzyme (AAE) consensus motif; other site 643561014491 AMP binding site [chemical binding]; other site 643561014492 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 643561014493 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 643561014494 putative NAD(P) binding site [chemical binding]; other site 643561014495 active site 643561014496 putative substrate binding site [chemical binding]; other site 643561014497 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 643561014498 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 643561014499 active site 643561014500 TDP-binding site; other site 643561014501 acceptor substrate-binding pocket; other site 643561014502 homodimer interface [polypeptide binding]; other site 643561014503 MbtH-like protein; Region: MbtH; pfam03621 643561014504 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 643561014505 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 643561014506 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 643561014507 HlyD family secretion protein; Region: HlyD_3; pfam13437 643561014508 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 643561014509 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 643561014510 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 643561014511 catalytic residues [active] 643561014512 dimer interface [polypeptide binding]; other site 643561014513 putative glutathione S-transferase; Provisional; Region: PRK10357 643561014514 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 643561014515 putative C-terminal domain interface [polypeptide binding]; other site 643561014516 putative GSH binding site (G-site) [chemical binding]; other site 643561014517 putative dimer interface [polypeptide binding]; other site 643561014518 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 643561014519 dimer interface [polypeptide binding]; other site 643561014520 N-terminal domain interface [polypeptide binding]; other site 643561014521 putative substrate binding pocket (H-site) [chemical binding]; other site 643561014522 adenylosuccinate lyase; Provisional; Region: PRK09285 643561014523 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 643561014524 tetramer interface [polypeptide binding]; other site 643561014525 active site 643561014526 YaeQ protein; Region: YaeQ; pfam07152 643561014527 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 643561014528 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 643561014529 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 643561014530 Predicted membrane protein [Function unknown]; Region: COG1950 643561014531 Peptidase family M48; Region: Peptidase_M48; cl12018 643561014532 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 643561014533 trimer interface [polypeptide binding]; other site 643561014534 dimer interface [polypeptide binding]; other site 643561014535 putative active site [active] 643561014536 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 643561014537 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 643561014538 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 643561014539 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 643561014540 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 643561014541 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 643561014542 O-Antigen ligase; Region: Wzy_C; pfam04932 643561014543 putative major pilin subunit; Provisional; Region: PRK10574 643561014544 Pilin (bacterial filament); Region: Pilin; pfam00114 643561014545 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 643561014546 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 643561014547 phosphopeptide binding site; other site 643561014548 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 643561014549 active site 643561014550 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 643561014551 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 643561014552 CoA binding domain; Region: CoA_binding; smart00881 643561014553 CoA-ligase; Region: Ligase_CoA; pfam00549 643561014554 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 643561014555 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 643561014556 CoA-ligase; Region: Ligase_CoA; pfam00549 643561014557 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 643561014558 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 643561014559 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 643561014560 DNA protecting protein DprA; Region: dprA; TIGR00732 643561014561 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 643561014562 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 643561014563 active site 643561014564 catalytic residues [active] 643561014565 metal binding site [ion binding]; metal-binding site 643561014566 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 643561014567 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 643561014568 putative active site [active] 643561014569 substrate binding site [chemical binding]; other site 643561014570 putative cosubstrate binding site; other site 643561014571 catalytic site [active] 643561014572 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 643561014573 substrate binding site [chemical binding]; other site 643561014574 AzlC protein; Region: AzlC; pfam03591 643561014575 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 643561014576 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 643561014577 Phosphoglycerate kinase; Region: PGK; pfam00162 643561014578 substrate binding site [chemical binding]; other site 643561014579 hinge regions; other site 643561014580 ADP binding site [chemical binding]; other site 643561014581 catalytic site [active] 643561014582 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 643561014583 active site 643561014584 dimer interface [polypeptide binding]; other site 643561014585 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 643561014586 Wilm's tumour protein; Region: WT1; pfam02165 643561014587 cell density-dependent motility repressor; Provisional; Region: PRK10082 643561014588 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561014589 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 643561014590 dimerization interface [polypeptide binding]; other site 643561014591 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561014592 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 643561014593 active site 643561014594 Zn binding site [ion binding]; other site 643561014595 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 643561014596 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 643561014597 EamA-like transporter family; Region: EamA; pfam00892 643561014598 EamA-like transporter family; Region: EamA; pfam00892 643561014599 Nitrate and nitrite sensing; Region: NIT; pfam08376 643561014600 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 643561014601 dimerization interface [polypeptide binding]; other site 643561014602 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 643561014603 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 643561014604 dimer interface [polypeptide binding]; other site 643561014605 putative CheW interface [polypeptide binding]; other site 643561014606 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 643561014607 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 643561014608 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 643561014609 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561014610 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 643561014611 putative dimerization interface [polypeptide binding]; other site 643561014612 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561014613 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 643561014614 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 643561014615 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 643561014616 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 643561014617 putative active site pocket [active] 643561014618 putative metal binding site [ion binding]; other site 643561014619 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 643561014620 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 643561014621 inhibitor site; inhibition site 643561014622 active site 643561014623 dimer interface [polypeptide binding]; other site 643561014624 catalytic residue [active] 643561014625 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 643561014626 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 643561014627 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 643561014628 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 643561014629 DctM-like transporters; Region: DctM; pfam06808 643561014630 Uncharacterized conserved protein [Function unknown]; Region: COG3391 643561014631 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 643561014632 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 643561014633 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 643561014634 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 643561014635 Amidohydrolase; Region: Amidohydro_2; pfam04909 643561014636 Transcriptional regulators [Transcription]; Region: PurR; COG1609 643561014637 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 643561014638 DNA binding site [nucleotide binding] 643561014639 domain linker motif; other site 643561014640 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 643561014641 Eukaryotic cytochrome b(561); Region: Cyt_b561; cl14616 643561014642 putative heme binding sites [chemical binding]; other site 643561014643 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 643561014644 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 643561014645 Walker A/P-loop; other site 643561014646 ATP binding site [chemical binding]; other site 643561014647 Q-loop/lid; other site 643561014648 ABC transporter signature motif; other site 643561014649 Walker B; other site 643561014650 D-loop; other site 643561014651 H-loop/switch region; other site 643561014652 TOBE domain; Region: TOBE_2; pfam08402 643561014653 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 643561014654 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 643561014655 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561014656 dimer interface [polypeptide binding]; other site 643561014657 conserved gate region; other site 643561014658 putative PBP binding loops; other site 643561014659 ABC-ATPase subunit interface; other site 643561014660 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 643561014661 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 643561014662 dimer interface [polypeptide binding]; other site 643561014663 conserved gate region; other site 643561014664 putative PBP binding loops; other site 643561014665 ABC-ATPase subunit interface; other site 643561014666 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 643561014667 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 643561014668 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 643561014669 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 643561014670 dimer interface [polypeptide binding]; other site 643561014671 NADP binding site [chemical binding]; other site 643561014672 catalytic residues [active] 643561014673 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 643561014674 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 643561014675 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 643561014676 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 643561014677 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 643561014678 ligand-binding site [chemical binding]; other site 643561014679 Ubiquitin; Region: Ubiquitin; cd01803 643561014680 Ubiquitin homologues; Region: UBQ; smart00213 643561014681 Ubq - E2 interaction site; other site 643561014682 Ubq - UCH interaction site; other site 643561014683 Ubq - CUE interaction site; other site 643561014684 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 643561014685 Major Facilitator Superfamily; Region: MFS_1; pfam07690 643561014686 putative substrate translocation pore; other site 643561014687 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 643561014688 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 643561014689 putative ion selectivity filter; other site 643561014690 putative pore gating glutamate residue; other site 643561014691 putative H+/Cl- coupling transport residue; other site 643561014692 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 643561014693 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 643561014694 dimer interface [polypeptide binding]; other site 643561014695 ssDNA binding site [nucleotide binding]; other site 643561014696 tetramer (dimer of dimers) interface [polypeptide binding]; other site 643561014697 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 643561014698 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 643561014699 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 643561014700 ATP binding site [chemical binding]; other site 643561014701 putative Mg++ binding site [ion binding]; other site 643561014702 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 643561014703 Fic family protein [Function unknown]; Region: COG3177 643561014704 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 643561014705 Fic/DOC family; Region: Fic; pfam02661 643561014706 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 643561014707 Actin-Fragmin Kinase (AFK); catalytic domain. The AFK catalytic domain 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, aminoglycoside...; Region: AFK; cl07713 643561014708 conserved hypothetical protein; Region: TIGR03843 643561014709 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 643561014710 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 643561014711 HsdM N-terminal domain; Region: HsdM_N; pfam12161 643561014712 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 643561014713 Methyltransferase domain; Region: Methyltransf_26; pfam13659 643561014714 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561014715 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561014716 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 643561014717 putative dimerization interface [polypeptide binding]; other site 643561014718 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 643561014719 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561014720 Transcriptional regulators [Transcription]; Region: MarR; COG1846 643561014721 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 643561014722 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 643561014723 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 643561014724 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 643561014725 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 643561014726 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561014727 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561014728 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 643561014729 putative effector binding pocket; other site 643561014730 dimerization interface [polypeptide binding]; other site 643561014731 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 643561014732 EamA-like transporter family; Region: EamA; pfam00892 643561014733 Predicted transporter component [General function prediction only]; Region: COG2391 643561014734 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 643561014735 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 643561014736 putative DNA binding site [nucleotide binding]; other site 643561014737 dimerization interface [polypeptide binding]; other site 643561014738 putative Zn2+ binding site [ion binding]; other site 643561014739 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 643561014740 PAS fold; Region: PAS_7; pfam12860 643561014741 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561014742 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561014743 metal binding site [ion binding]; metal-binding site 643561014744 active site 643561014745 I-site; other site 643561014746 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 643561014747 classical (c) SDRs; Region: SDR_c; cd05233 643561014748 NAD(P) binding site [chemical binding]; other site 643561014749 active site 643561014750 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 643561014751 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 643561014752 active site 643561014753 oxalacetate binding site [chemical binding]; other site 643561014754 citrylCoA binding site [chemical binding]; other site 643561014755 coenzyme A binding site [chemical binding]; other site 643561014756 catalytic triad [active] 643561014757 acyl-CoA synthetase; Validated; Region: PRK06188 643561014758 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 643561014759 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 643561014760 acyl-activating enzyme (AAE) consensus motif; other site 643561014761 acyl-activating enzyme (AAE) consensus motif; other site 643561014762 putative AMP binding site [chemical binding]; other site 643561014763 putative active site [active] 643561014764 putative CoA binding site [chemical binding]; other site 643561014765 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 643561014766 Transcriptional regulator [Transcription]; Region: IclR; COG1414 643561014767 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 643561014768 Bacterial transcriptional regulator; Region: IclR; pfam01614 643561014769 L-lactate permease; Region: Lactate_perm; cl00701 643561014770 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 643561014771 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 643561014772 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 643561014773 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 643561014774 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 643561014775 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 643561014776 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 643561014777 Cadherin repeat-like domain; Region: CA_like; cl15786 643561014778 Ca2+ binding site [ion binding]; other site 643561014779 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 643561014780 Cadherin repeat-like domain; Region: CA_like; cl15786 643561014781 Ca2+ binding site [ion binding]; other site 643561014782 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 643561014783 Cadherin repeat-like domain; Region: CA_like; cl15786 643561014784 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 643561014785 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 643561014786 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 643561014787 Ligand Binding Site [chemical binding]; other site 643561014788 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 643561014789 nudix motif; other site 643561014790 EamA-like transporter family; Region: EamA; cl17759 643561014791 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 643561014792 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561014793 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 643561014794 dimerization interface [polypeptide binding]; other site 643561014795 substrate binding pocket [chemical binding]; other site 643561014796 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 643561014797 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561014798 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561014799 metal binding site [ion binding]; metal-binding site 643561014800 active site 643561014801 I-site; other site 643561014802 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 643561014803 Lumazine binding domain; Region: Lum_binding; pfam00677 643561014804 Lumazine binding domain; Region: Lum_binding; pfam00677 643561014805 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 643561014806 putative active site [active] 643561014807 PAS fold; Region: PAS_3; pfam08447 643561014808 heme pocket [chemical binding]; other site 643561014809 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 643561014810 GAF domain; Region: GAF; pfam01590 643561014811 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 643561014812 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 643561014813 dimer interface [polypeptide binding]; other site 643561014814 phosphorylation site [posttranslational modification] 643561014815 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 643561014816 ATP binding site [chemical binding]; other site 643561014817 Mg2+ binding site [ion binding]; other site 643561014818 G-X-G motif; other site 643561014819 Response regulator receiver domain; Region: Response_reg; pfam00072 643561014820 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 643561014821 active site 643561014822 phosphorylation site [posttranslational modification] 643561014823 intermolecular recognition site; other site 643561014824 dimerization interface [polypeptide binding]; other site 643561014825 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 643561014826 Predicted membrane protein (DUF2127); Region: DUF2127; pfam09900 643561014827 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 643561014828 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 643561014829 FAD binding pocket [chemical binding]; other site 643561014830 FAD binding motif [chemical binding]; other site 643561014831 phosphate binding motif [ion binding]; other site 643561014832 NAD binding pocket [chemical binding]; other site 643561014833 Predicted transcriptional regulators [Transcription]; Region: COG1695 643561014834 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 643561014835 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 643561014836 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 643561014837 spermidine synthase; Provisional; Region: PRK03612 643561014838 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 643561014839 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 643561014840 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 643561014841 N-terminal plug; other site 643561014842 ligand-binding site [chemical binding]; other site 643561014843 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 643561014844 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 643561014845 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 643561014846 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 643561014847 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 643561014848 Short C-terminal domain; Region: SHOCT; pfam09851 643561014849 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 643561014850 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 643561014851 Transcriptional regulator [Transcription]; Region: LysR; COG0583 643561014852 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 643561014853 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 643561014854 dimerization interface [polypeptide binding]; other site 643561014855 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 643561014856 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 643561014857 inhibitor-cofactor binding pocket; inhibition site 643561014858 pyridoxal 5'-phosphate binding site [chemical binding]; other site 643561014859 catalytic residue [active] 643561014860 Putative amidotransferase; Region: DUF4066; pfam13278 643561014861 conserved cys residue [active] 643561014862 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 643561014863 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 643561014864 tetrameric interface [polypeptide binding]; other site 643561014865 NAD binding site [chemical binding]; other site 643561014866 catalytic residues [active] 643561014867 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 643561014868 ligand binding site [chemical binding]; other site 643561014869 MASE2 domain; Region: MASE2; pfam05230 643561014870 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561014871 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561014872 metal binding site [ion binding]; metal-binding site 643561014873 active site 643561014874 I-site; other site 643561014875 Transcriptional regulators [Transcription]; Region: FadR; COG2186 643561014876 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 643561014877 DNA-binding site [nucleotide binding]; DNA binding site 643561014878 FCD domain; Region: FCD; pfam07729 643561014879 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 643561014880 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 643561014881 putative ligand binding site [chemical binding]; other site 643561014882 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 643561014883 TM-ABC transporter signature motif; other site 643561014884 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 643561014885 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 643561014886 TM-ABC transporter signature motif; other site 643561014887 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 643561014888 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 643561014889 Walker A/P-loop; other site 643561014890 ATP binding site [chemical binding]; other site 643561014891 Q-loop/lid; other site 643561014892 ABC transporter signature motif; other site 643561014893 Walker B; other site 643561014894 D-loop; other site 643561014895 H-loop/switch region; other site 643561014896 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 643561014897 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 643561014898 Walker A/P-loop; other site 643561014899 ATP binding site [chemical binding]; other site 643561014900 Q-loop/lid; other site 643561014901 ABC transporter signature motif; other site 643561014902 Walker B; other site 643561014903 D-loop; other site 643561014904 H-loop/switch region; other site 643561014905 allantoate amidohydrolase; Reviewed; Region: PRK12893 643561014906 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 643561014907 active site 643561014908 metal binding site [ion binding]; metal-binding site 643561014909 dimer interface [polypeptide binding]; other site 643561014910 Uncharacterized conserved protein [Function unknown]; Region: COG5476 643561014911 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 643561014912 MlrC C-terminus; Region: MlrC_C; pfam07171 643561014913 Malate dehydrogenase enzyme; Region: Malate_DH; pfam12434 643561014914 malic enzyme; Reviewed; Region: PRK12862 643561014915 Malic enzyme, N-terminal domain; Region: malic; pfam00390 643561014916 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 643561014917 putative NAD(P) binding site [chemical binding]; other site 643561014918 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 643561014919 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 643561014920 active site 643561014921 barstar interaction site; other site 643561014922 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 643561014923 putative RNAase interaction site [polypeptide binding]; other site 643561014924 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 643561014925 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 643561014926 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 643561014927 SurA N-terminal domain; Region: SurA_N; pfam09312 643561014928 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 643561014929 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 643561014930 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 643561014931 Organic solvent tolerance protein; Region: OstA_C; pfam04453 643561014932 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 643561014933 Phosphotransferase enzyme family; Region: APH; pfam01636 643561014934 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 643561014935 RNA methyltransferase, RsmE family; Region: TIGR00046 643561014936 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 643561014937 AAA domain; Region: AAA_23; pfam13476 643561014938 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643561014939 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 643561014940 AAA domain; Region: AAA_21; pfam13304 643561014941 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 643561014942 ABC transporter signature motif; other site 643561014943 Walker B; other site 643561014944 D-loop; other site 643561014945 H-loop/switch region; other site 643561014946 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561014947 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561014948 metal binding site [ion binding]; metal-binding site 643561014949 active site 643561014950 I-site; other site 643561014951 hypothetical protein; Provisional; Region: PRK07907 643561014952 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 643561014953 metal binding site [ion binding]; metal-binding site 643561014954 putative dimer interface [polypeptide binding]; other site 643561014955 ethanolamine permease; Region: 2A0305; TIGR00908 643561014956 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 643561014957 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 643561014958 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 643561014959 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 643561014960 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 643561014961 metal binding site [ion binding]; metal-binding site 643561014962 active site 643561014963 I-site; other site 643561014964 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 643561014965 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 643561014966 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 643561014967 Predicted membrane protein [Function unknown]; Region: COG2119 643561014968 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 643561014969 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 643561014970 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 643561014971 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 643561014972 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 643561014973 short chain dehydrogenase; Provisional; Region: PRK07024 643561014974 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 643561014975 NAD(P) binding site [chemical binding]; other site 643561014976 active site 643561014977 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 643561014978 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 643561014979 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 643561014980 active site 643561014981 motif I; other site 643561014982 motif II; other site 643561014983 KpsF/GutQ family protein; Region: kpsF; TIGR00393 643561014984 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 643561014985 putative active site [active] 643561014986 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 643561014987 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 643561014988 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 643561014989 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 643561014990 TrkA-N domain; Region: TrkA_N; pfam02254 643561014991 TrkA-C domain; Region: TrkA_C; pfam02080 643561014992 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 643561014993 active site 643561014994 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 643561014995 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 643561014996 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 643561014997 Flavodoxin; Region: Flavodoxin_1; pfam00258 643561014998 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 643561014999 FAD binding pocket [chemical binding]; other site 643561015000 FAD binding motif [chemical binding]; other site 643561015001 catalytic residues [active] 643561015002 NAD binding pocket [chemical binding]; other site 643561015003 phosphate binding motif [ion binding]; other site 643561015004 beta-alpha-beta structure motif; other site 643561015005 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 643561015006 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 643561015007 ligand binding site [chemical binding]; other site 643561015008 flexible hinge region; other site 643561015009 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 643561015010 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 643561015011 trmE is a tRNA modification GTPase; Region: trmE; cd04164 643561015012 G1 box; other site 643561015013 GTP/Mg2+ binding site [chemical binding]; other site 643561015014 Switch I region; other site 643561015015 G2 box; other site 643561015016 Switch II region; other site 643561015017 G3 box; other site 643561015018 G4 box; other site 643561015019 G5 box; other site 643561015020 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 643561015021 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 643561015022 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 643561015023 membrane protein insertase, YidC/Oxa1 family, N-terminal domain; Region: yidC_nterm; TIGR03593 643561015024 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 643561015025 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 643561015026 hypothetical protein; Provisional; Region: PRK14389 643561015027 Ribonuclease P; Region: Ribonuclease_P; pfam00825 643561015028 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399