-- dump date 20140619_120319 -- class Genbank::misc_feature -- table misc_feature_note -- id note 375286000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 375286000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 375286000003 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 375286000004 Walker A motif; other site 375286000005 ATP binding site [chemical binding]; other site 375286000006 Walker B motif; other site 375286000007 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 375286000008 arginine finger; other site 375286000009 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 375286000010 DnaA box-binding interface [nucleotide binding]; other site 375286000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 375286000012 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 375286000013 putative DNA binding surface [nucleotide binding]; other site 375286000014 dimer interface [polypeptide binding]; other site 375286000015 beta-clamp/clamp loader binding surface; other site 375286000016 beta-clamp/translesion DNA polymerase binding surface; other site 375286000017 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 375286000018 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286000019 ATP binding site [chemical binding]; other site 375286000020 Mg2+ binding site [ion binding]; other site 375286000021 G-X-G motif; other site 375286000022 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 375286000023 anchoring element; other site 375286000024 dimer interface [polypeptide binding]; other site 375286000025 ATP binding site [chemical binding]; other site 375286000026 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 375286000027 active site 375286000028 putative metal-binding site [ion binding]; other site 375286000029 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 375286000030 SIR2-like domain; Region: SIR2_2; pfam13289 375286000031 Domain of unknown function DUF87; Region: DUF87; pfam01935 375286000032 AAA-like domain; Region: AAA_10; pfam12846 375286000033 KTSC domain; Region: KTSC; pfam13619 375286000034 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 375286000035 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 375286000036 cofactor binding site; other site 375286000037 DNA binding site [nucleotide binding] 375286000038 substrate interaction site [chemical binding]; other site 375286000039 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 375286000040 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 375286000041 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 375286000042 Surface antigen; Region: Bac_surface_Ag; pfam01103 375286000043 haemagglutination activity domain; Region: Haemagg_act; pfam05860 375286000044 FecR protein; Region: FecR; pfam04773 375286000045 Response regulator receiver domain; Region: Response_reg; pfam00072 375286000046 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286000047 active site 375286000048 phosphorylation site [posttranslational modification] 375286000049 intermolecular recognition site; other site 375286000050 dimerization interface [polypeptide binding]; other site 375286000051 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286000052 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286000053 metal binding site [ion binding]; metal-binding site 375286000054 active site 375286000055 I-site; other site 375286000056 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 375286000057 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286000058 active site 375286000059 phosphorylation site [posttranslational modification] 375286000060 intermolecular recognition site; other site 375286000061 dimerization interface [polypeptide binding]; other site 375286000062 CheB methylesterase; Region: CheB_methylest; pfam01339 375286000063 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 375286000064 putative binding surface; other site 375286000065 active site 375286000066 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 375286000067 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286000068 ATP binding site [chemical binding]; other site 375286000069 Mg2+ binding site [ion binding]; other site 375286000070 G-X-G motif; other site 375286000071 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 375286000072 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286000073 Response regulator receiver domain; Region: Response_reg; pfam00072 375286000074 active site 375286000075 phosphorylation site [posttranslational modification] 375286000076 intermolecular recognition site; other site 375286000077 dimerization interface [polypeptide binding]; other site 375286000078 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 375286000079 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 375286000080 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 375286000081 S-adenosylmethionine binding site [chemical binding]; other site 375286000082 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 375286000083 binding surface 375286000084 TPR motif; other site 375286000085 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 375286000086 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 375286000087 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 375286000088 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 375286000089 dimerization interface [polypeptide binding]; other site 375286000090 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375286000091 dimer interface [polypeptide binding]; other site 375286000092 putative CheW interface [polypeptide binding]; other site 375286000093 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 375286000094 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 375286000095 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 375286000096 HlyD family secretion protein; Region: HlyD_3; pfam13437 375286000097 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 375286000098 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 375286000099 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286000100 active site 375286000101 phosphorylation site [posttranslational modification] 375286000102 intermolecular recognition site; other site 375286000103 dimerization interface [polypeptide binding]; other site 375286000104 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 375286000105 DNA binding site [nucleotide binding] 375286000106 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 375286000107 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 375286000108 dimer interface [polypeptide binding]; other site 375286000109 phosphorylation site [posttranslational modification] 375286000110 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286000111 ATP binding site [chemical binding]; other site 375286000112 Mg2+ binding site [ion binding]; other site 375286000113 G-X-G motif; other site 375286000114 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 375286000115 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 375286000116 dimer interface [polypeptide binding]; other site 375286000117 active site 375286000118 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 375286000119 substrate binding site [chemical binding]; other site 375286000120 catalytic residue [active] 375286000121 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 375286000122 dimerization interface [polypeptide binding]; other site 375286000123 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 375286000124 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375286000125 dimer interface [polypeptide binding]; other site 375286000126 putative CheW interface [polypeptide binding]; other site 375286000127 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 375286000128 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 375286000129 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 375286000130 active site 375286000131 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 375286000132 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 375286000133 PAS fold; Region: PAS_3; pfam08447 375286000134 putative active site [active] 375286000135 heme pocket [chemical binding]; other site 375286000136 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286000137 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286000138 metal binding site [ion binding]; metal-binding site 375286000139 active site 375286000140 I-site; other site 375286000141 M20 Zn-peptidases include exopeptidases; Region: M20_like; cd02697 375286000142 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 375286000143 putative metal binding site [ion binding]; other site 375286000144 allantoate amidohydrolase; Reviewed; Region: PRK12890 375286000145 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 375286000146 active site 375286000147 metal binding site [ion binding]; metal-binding site 375286000148 dimer interface [polypeptide binding]; other site 375286000149 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 375286000150 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 375286000151 Walker A/P-loop; other site 375286000152 ATP binding site [chemical binding]; other site 375286000153 Q-loop/lid; other site 375286000154 ABC transporter signature motif; other site 375286000155 Walker B; other site 375286000156 D-loop; other site 375286000157 H-loop/switch region; other site 375286000158 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 375286000159 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286000160 dimer interface [polypeptide binding]; other site 375286000161 conserved gate region; other site 375286000162 putative PBP binding loops; other site 375286000163 ABC-ATPase subunit interface; other site 375286000164 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286000165 dimer interface [polypeptide binding]; other site 375286000166 conserved gate region; other site 375286000167 ABC-ATPase subunit interface; other site 375286000168 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 375286000169 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 375286000170 substrate binding pocket [chemical binding]; other site 375286000171 membrane-bound complex binding site; other site 375286000172 hinge residues; other site 375286000173 Transcriptional regulators [Transcription]; Region: FadR; COG2186 375286000174 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375286000175 DNA-binding site [nucleotide binding]; DNA binding site 375286000176 FCD domain; Region: FCD; pfam07729 375286000177 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 375286000178 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 375286000179 catalytic residue [active] 375286000180 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 375286000181 catalytic residues [active] 375286000182 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 375286000183 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 375286000184 peroxiredoxin; Region: AhpC; TIGR03137 375286000185 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 375286000186 dimer interface [polypeptide binding]; other site 375286000187 decamer (pentamer of dimers) interface [polypeptide binding]; other site 375286000188 catalytic triad [active] 375286000189 peroxidatic and resolving cysteines [active] 375286000190 aldolase II superfamily protein; Provisional; Region: PRK07044 375286000191 intersubunit interface [polypeptide binding]; other site 375286000192 active site 375286000193 Zn2+ binding site [ion binding]; other site 375286000194 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 375286000195 active site 1 [active] 375286000196 dimer interface [polypeptide binding]; other site 375286000197 hexamer interface [polypeptide binding]; other site 375286000198 active site 2 [active] 375286000199 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 375286000200 hypothetical protein; Provisional; Region: PRK09256 375286000201 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 375286000202 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 375286000203 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 375286000204 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 375286000205 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 375286000206 N-terminal plug; other site 375286000207 ligand-binding site [chemical binding]; other site 375286000208 AAA domain; Region: AAA_28; pfam13521 375286000209 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 375286000210 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 375286000211 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 375286000212 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375286000213 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 375286000214 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 375286000215 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 375286000216 HlyD family secretion protein; Region: HlyD_3; pfam13437 375286000217 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 375286000218 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 375286000219 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 375286000220 Acyltransferase family; Region: Acyl_transf_3; pfam01757 375286000221 putative metal dependent hydrolase; Provisional; Region: PRK11598 375286000222 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 375286000223 Sulfatase; Region: Sulfatase; pfam00884 375286000224 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 375286000225 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 375286000226 dimer interface [polypeptide binding]; other site 375286000227 phosphorylation site [posttranslational modification] 375286000228 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286000229 ATP binding site [chemical binding]; other site 375286000230 Mg2+ binding site [ion binding]; other site 375286000231 G-X-G motif; other site 375286000232 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 375286000233 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286000234 active site 375286000235 phosphorylation site [posttranslational modification] 375286000236 intermolecular recognition site; other site 375286000237 dimerization interface [polypeptide binding]; other site 375286000238 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 375286000239 DNA binding site [nucleotide binding] 375286000240 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 375286000241 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 375286000242 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 375286000243 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 375286000244 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 375286000245 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 375286000246 Magnesium ion binding site [ion binding]; other site 375286000247 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 375286000248 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 375286000249 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 375286000250 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 375286000251 N-terminal plug; other site 375286000252 ligand-binding site [chemical binding]; other site 375286000253 Protein of unknown function (DUF461); Region: DUF461; pfam04314 375286000254 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 375286000255 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 375286000256 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_14; cd08355 375286000257 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 375286000258 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 375286000259 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 375286000260 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 375286000261 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 375286000262 CreA protein; Region: CreA; pfam05981 375286000263 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 375286000264 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 375286000265 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 375286000266 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 375286000267 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 375286000268 Proteins containing SET domain [General function prediction only]; Region: COG2940 375286000269 SET domain; Region: SET; pfam00856 375286000270 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 375286000271 Tar ligand binding domain homologue; Region: TarH; pfam02203 375286000272 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 375286000273 dimerization interface [polypeptide binding]; other site 375286000274 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375286000275 dimer interface [polypeptide binding]; other site 375286000276 putative CheW interface [polypeptide binding]; other site 375286000277 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 375286000278 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 375286000279 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 375286000280 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 375286000281 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 375286000282 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 375286000283 dimerization interface [polypeptide binding]; other site 375286000284 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375286000285 dimer interface [polypeptide binding]; other site 375286000286 putative CheW interface [polypeptide binding]; other site 375286000287 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 375286000288 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 375286000289 oligomer interface [polypeptide binding]; other site 375286000290 metal binding site [ion binding]; metal-binding site 375286000291 metal binding site [ion binding]; metal-binding site 375286000292 putative Cl binding site [ion binding]; other site 375286000293 basic sphincter; other site 375286000294 hydrophobic gate; other site 375286000295 periplasmic entrance; other site 375286000296 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 375286000297 B12 binding domain; Region: B12-binding; pfam02310 375286000298 B12 binding site [chemical binding]; other site 375286000299 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 375286000300 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 375286000301 FeS/SAM binding site; other site 375286000302 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 375286000303 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 375286000304 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 375286000305 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 375286000306 Sulfate transporter family; Region: Sulfate_transp; pfam00916 375286000307 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 375286000308 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 375286000309 Transcriptional regulators [Transcription]; Region: GntR; COG1802 375286000310 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375286000311 DNA-binding site [nucleotide binding]; DNA binding site 375286000312 FCD domain; Region: FCD; pfam07729 375286000313 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 375286000314 TAP-like protein; Region: Abhydrolase_4; pfam08386 375286000315 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 375286000316 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 375286000317 active site 375286000318 NAD binding site [chemical binding]; other site 375286000319 metal binding site [ion binding]; metal-binding site 375286000320 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 375286000321 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 375286000322 putative substrate translocation pore; other site 375286000323 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 375286000324 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 375286000325 Walker A/P-loop; other site 375286000326 ATP binding site [chemical binding]; other site 375286000327 Q-loop/lid; other site 375286000328 ABC transporter signature motif; other site 375286000329 Walker B; other site 375286000330 D-loop; other site 375286000331 H-loop/switch region; other site 375286000332 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 375286000333 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 375286000334 Walker A/P-loop; other site 375286000335 ATP binding site [chemical binding]; other site 375286000336 Q-loop/lid; other site 375286000337 ABC transporter signature motif; other site 375286000338 Walker B; other site 375286000339 D-loop; other site 375286000340 H-loop/switch region; other site 375286000341 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 375286000342 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 375286000343 TM-ABC transporter signature motif; other site 375286000344 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375286000345 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 375286000346 TM-ABC transporter signature motif; other site 375286000347 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 375286000348 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 375286000349 putative ligand binding site [chemical binding]; other site 375286000350 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 375286000351 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 375286000352 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 375286000353 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 375286000354 Coenzyme A transferase; Region: CoA_trans; cl17247 375286000355 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 375286000356 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 375286000357 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 375286000358 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 375286000359 malonate decarboxylase holo-[acyl-carrier-protein] synthase; Region: malonate_mdcG; TIGR03135 375286000360 triphosphoribosyl-dephospho-CoA synthase MdcB; Region: malonate_mdcB; TIGR03132 375286000361 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 375286000362 Transcriptional regulators [Transcription]; Region: FadR; COG2186 375286000363 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375286000364 DNA-binding site [nucleotide binding]; DNA binding site 375286000365 FCD domain; Region: FCD; pfam07729 375286000366 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 375286000367 dimerization interface [polypeptide binding]; other site 375286000368 putative catalytic residue [active] 375286000369 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 375286000370 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 375286000371 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 375286000372 active site 375286000373 HIGH motif; other site 375286000374 KMSK motif region; other site 375286000375 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 375286000376 tRNA binding surface [nucleotide binding]; other site 375286000377 anticodon binding site; other site 375286000378 Sporulation related domain; Region: SPOR; pfam05036 375286000379 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 375286000380 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 375286000381 catalytic residues [active] 375286000382 hinge region; other site 375286000383 alpha helical domain; other site 375286000384 short chain dehydrogenase; Provisional; Region: PRK07024 375286000385 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375286000386 NAD(P) binding site [chemical binding]; other site 375286000387 active site 375286000388 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 375286000389 hypothetical protein; Provisional; Region: PRK01842 375286000390 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 375286000391 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 375286000392 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 375286000393 inhibitor-cofactor binding pocket; inhibition site 375286000394 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286000395 catalytic residue [active] 375286000396 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 375286000397 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 375286000398 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 375286000399 catalytic residue [active] 375286000400 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 375286000401 AAA domain; Region: AAA_26; pfam13500 375286000402 biotin synthase; Region: bioB; TIGR00433 375286000403 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 375286000404 FeS/SAM binding site; other site 375286000405 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 375286000406 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 375286000407 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 375286000408 active site 375286000409 catalytic residues [active] 375286000410 metal binding site [ion binding]; metal-binding site 375286000411 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 375286000412 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 375286000413 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 375286000414 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 375286000415 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 375286000416 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 375286000417 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 375286000418 Coenzyme A binding pocket [chemical binding]; other site 375286000419 hypothetical protein; Provisional; Region: PRK02237 375286000420 Helix-turn-helix domain; Region: HTH_20; pfam12840 375286000421 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 375286000422 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375286000423 DNA-binding site [nucleotide binding]; DNA binding site 375286000424 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 375286000425 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286000426 homodimer interface [polypeptide binding]; other site 375286000427 catalytic residue [active] 375286000428 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 375286000429 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 375286000430 putative molybdopterin cofactor binding site [chemical binding]; other site 375286000431 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 375286000432 putative molybdopterin cofactor binding site; other site 375286000433 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 375286000434 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 375286000435 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 375286000436 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375286000437 AlkA N-terminal domain; Region: AlkA_N; pfam06029 375286000438 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 375286000439 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 375286000440 minor groove reading motif; other site 375286000441 helix-hairpin-helix signature motif; other site 375286000442 substrate binding pocket [chemical binding]; other site 375286000443 active site 375286000444 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 375286000445 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 375286000446 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 375286000447 DNA binding site [nucleotide binding] 375286000448 active site 375286000449 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 375286000450 catalytic triad [active] 375286000451 Tic20-like protein; Region: Tic20; pfam09685 375286000452 DNA topoisomerase III; Validated; Region: PRK08173 375286000453 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 375286000454 active site 375286000455 putative interdomain interaction site [polypeptide binding]; other site 375286000456 putative metal-binding site [ion binding]; other site 375286000457 putative nucleotide binding site [chemical binding]; other site 375286000458 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 375286000459 domain I; other site 375286000460 DNA binding groove [nucleotide binding] 375286000461 phosphate binding site [ion binding]; other site 375286000462 domain II; other site 375286000463 domain III; other site 375286000464 nucleotide binding site [chemical binding]; other site 375286000465 catalytic site [active] 375286000466 domain IV; other site 375286000467 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 375286000468 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 375286000469 Protein of unknown function (DUF494); Region: DUF494; pfam04361 375286000470 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 375286000471 DNA protecting protein DprA; Region: dprA; TIGR00732 375286000472 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 375286000473 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 375286000474 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 375286000475 active site 375286000476 catalytic residues [active] 375286000477 metal binding site [ion binding]; metal-binding site 375286000478 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 375286000479 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 375286000480 putative active site [active] 375286000481 substrate binding site [chemical binding]; other site 375286000482 putative cosubstrate binding site; other site 375286000483 catalytic site [active] 375286000484 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 375286000485 substrate binding site [chemical binding]; other site 375286000486 Predicted membrane protein [Function unknown]; Region: COG3650 375286000487 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 375286000488 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 375286000489 putative DNA binding site [nucleotide binding]; other site 375286000490 putative Zn2+ binding site [ion binding]; other site 375286000491 AsnC family; Region: AsnC_trans_reg; pfam01037 375286000492 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 375286000493 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 375286000494 inhibitor-cofactor binding pocket; inhibition site 375286000495 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286000496 catalytic residue [active] 375286000497 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 375286000498 Amidinotransferase; Region: Amidinotransf; cl12043 375286000499 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 375286000500 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 375286000501 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 375286000502 substrate binding pocket [chemical binding]; other site 375286000503 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 375286000504 B12 binding site [chemical binding]; other site 375286000505 cobalt ligand [ion binding]; other site 375286000506 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 375286000507 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 375286000508 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 375286000509 putative active site [active] 375286000510 putative dimer interface [polypeptide binding]; other site 375286000511 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 375286000512 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 375286000513 active site 375286000514 Putative methyltransferase; Region: Methyltransf_4; cl17290 375286000515 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 375286000516 Response regulator receiver domain; Region: Response_reg; pfam00072 375286000517 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286000518 active site 375286000519 phosphorylation site [posttranslational modification] 375286000520 intermolecular recognition site; other site 375286000521 dimerization interface [polypeptide binding]; other site 375286000522 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 375286000523 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 375286000524 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 375286000525 dimerization interface [polypeptide binding]; other site 375286000526 PAS domain; Region: PAS; smart00091 375286000527 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 375286000528 dimer interface [polypeptide binding]; other site 375286000529 phosphorylation site [posttranslational modification] 375286000530 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286000531 ATP binding site [chemical binding]; other site 375286000532 Mg2+ binding site [ion binding]; other site 375286000533 G-X-G motif; other site 375286000534 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 375286000535 16S rRNA methyltransferase B; Provisional; Region: PRK10901 375286000536 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 375286000537 S-adenosylmethionine binding site [chemical binding]; other site 375286000538 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 375286000539 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofH subunit; Region: F420_cofH; TIGR03551 375286000540 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 375286000541 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 375286000542 dimerization interface [polypeptide binding]; other site 375286000543 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 375286000544 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375286000545 dimer interface [polypeptide binding]; other site 375286000546 putative CheW interface [polypeptide binding]; other site 375286000547 flap endonuclease-like protein; Provisional; Region: PRK09482 375286000548 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 375286000549 active site 375286000550 metal binding site 1 [ion binding]; metal-binding site 375286000551 putative 5' ssDNA interaction site; other site 375286000552 metal binding site 3; metal-binding site 375286000553 metal binding site 2 [ion binding]; metal-binding site 375286000554 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 375286000555 putative DNA binding site [nucleotide binding]; other site 375286000556 putative metal binding site [ion binding]; other site 375286000557 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 375286000558 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 375286000559 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 375286000560 Walker A motif; other site 375286000561 ATP binding site [chemical binding]; other site 375286000562 Walker B motif; other site 375286000563 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 375286000564 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 375286000565 homotrimer interaction site [polypeptide binding]; other site 375286000566 putative active site [active] 375286000567 Membrane fusogenic activity; Region: BMFP; pfam04380 375286000568 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 375286000569 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 375286000570 Nitrogen regulatory protein P-II; Region: P-II; smart00938 375286000571 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 375286000572 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 375286000573 Glutamate-cysteine ligase; Region: GshA; pfam08886 375286000574 glutathione synthetase; Provisional; Region: PRK05246 375286000575 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 375286000576 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 375286000577 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 375286000578 active pocket/dimerization site; other site 375286000579 active site 375286000580 phosphorylation site [posttranslational modification] 375286000581 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 375286000582 dimerization domain swap beta strand [polypeptide binding]; other site 375286000583 regulatory protein interface [polypeptide binding]; other site 375286000584 active site 375286000585 regulatory phosphorylation site [posttranslational modification]; other site 375286000586 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 375286000587 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 375286000588 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 375286000589 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 375286000590 Chromate transporter; Region: Chromate_transp; pfam02417 375286000591 Chromate transporter; Region: Chromate_transp; pfam02417 375286000592 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 375286000593 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 375286000594 putative ADP-binding pocket [chemical binding]; other site 375286000595 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 375286000596 O-Antigen ligase; Region: Wzy_C; pfam04932 375286000597 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 375286000598 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 375286000599 putative metal binding site; other site 375286000600 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 375286000601 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 375286000602 Methyltransferase domain; Region: Methyltransf_23; pfam13489 375286000603 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 375286000604 S-adenosylmethionine binding site [chemical binding]; other site 375286000605 muropeptide transporter; Reviewed; Region: ampG; PRK11902 375286000606 AmpG-like permease; Region: 2A0125; TIGR00901 375286000607 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 375286000608 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 375286000609 putative RNA binding site [nucleotide binding]; other site 375286000610 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 375286000611 OpgC protein; Region: OpgC_C; pfam10129 375286000612 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 375286000613 Major Facilitator Superfamily; Region: MFS_1; pfam07690 375286000614 putative substrate translocation pore; other site 375286000615 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 375286000616 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 375286000617 putative active site [active] 375286000618 putative catalytic site [active] 375286000619 putative DNA binding site [nucleotide binding]; other site 375286000620 putative phosphate binding site [ion binding]; other site 375286000621 metal binding site A [ion binding]; metal-binding site 375286000622 putative AP binding site [nucleotide binding]; other site 375286000623 putative metal binding site B [ion binding]; other site 375286000624 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 375286000625 active site 375286000626 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 375286000627 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 375286000628 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 375286000629 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 375286000630 GatB domain; Region: GatB_Yqey; smart00845 375286000631 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 375286000632 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 375286000633 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 375286000634 rod shape-determining protein MreB; Provisional; Region: PRK13927 375286000635 MreB and similar proteins; Region: MreB_like; cd10225 375286000636 nucleotide binding site [chemical binding]; other site 375286000637 Mg binding site [ion binding]; other site 375286000638 putative protofilament interaction site [polypeptide binding]; other site 375286000639 RodZ interaction site [polypeptide binding]; other site 375286000640 rod shape-determining protein MreC; Provisional; Region: PRK13922 375286000641 rod shape-determining protein MreC; Region: MreC; pfam04085 375286000642 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 375286000643 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 375286000644 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 375286000645 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 375286000646 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 375286000647 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 375286000648 rare lipoprotein A; Region: rlpA; TIGR00413 375286000649 Sporulation related domain; Region: SPOR; pfam05036 375286000650 Predicted methyltransferases [General function prediction only]; Region: COG0313 375286000651 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 375286000652 putative SAM binding site [chemical binding]; other site 375286000653 putative homodimer interface [polypeptide binding]; other site 375286000654 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 375286000655 putative ligand binding site [chemical binding]; other site 375286000656 hypothetical protein; Reviewed; Region: PRK12497 375286000657 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 375286000658 dimer interface [polypeptide binding]; other site 375286000659 active site 375286000660 BON domain; Region: BON; pfam04972 375286000661 BON domain; Region: BON; pfam04972 375286000662 BCCT family transporter; Region: BCCT; pfam02028 375286000663 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 375286000664 Peptidase family M48; Region: Peptidase_M48; cl12018 375286000665 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 375286000666 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 375286000667 catalytic residues [active] 375286000668 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 375286000669 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 375286000670 S-adenosylmethionine binding site [chemical binding]; other site 375286000671 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 375286000672 peptide chain release factor 1; Validated; Region: prfA; PRK00591 375286000673 This domain is found in peptide chain release factors; Region: PCRF; smart00937 375286000674 RF-1 domain; Region: RF-1; pfam00472 375286000675 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 375286000676 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 375286000677 tRNA; other site 375286000678 putative tRNA binding site [nucleotide binding]; other site 375286000679 putative NADP binding site [chemical binding]; other site 375286000680 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 375286000681 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 375286000682 CHASE2 domain; Region: CHASE2; pfam05226 375286000683 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 375286000684 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 375286000685 dimer interface [polypeptide binding]; other site 375286000686 phosphorylation site [posttranslational modification] 375286000687 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286000688 ATP binding site [chemical binding]; other site 375286000689 Mg2+ binding site [ion binding]; other site 375286000690 G-X-G motif; other site 375286000691 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 375286000692 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 375286000693 FecR protein; Region: FecR; pfam04773 375286000694 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 375286000695 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286000696 active site 375286000697 phosphorylation site [posttranslational modification] 375286000698 intermolecular recognition site; other site 375286000699 dimerization interface [polypeptide binding]; other site 375286000700 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 375286000701 DNA binding site [nucleotide binding] 375286000702 psiF repeat; Region: PsiF_repeat; pfam07769 375286000703 psiF repeat; Region: PsiF_repeat; pfam07769 375286000704 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 375286000705 S-formylglutathione hydrolase; Region: PLN02442 375286000706 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 375286000707 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 375286000708 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 375286000709 substrate binding site [chemical binding]; other site 375286000710 catalytic Zn binding site [ion binding]; other site 375286000711 NAD binding site [chemical binding]; other site 375286000712 structural Zn binding site [ion binding]; other site 375286000713 dimer interface [polypeptide binding]; other site 375286000714 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 375286000715 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 375286000716 conserved cys residue [active] 375286000717 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375286000718 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375286000719 Transcriptional regulators [Transcription]; Region: GntR; COG1802 375286000720 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375286000721 DNA-binding site [nucleotide binding]; DNA binding site 375286000722 FCD domain; Region: FCD; pfam07729 375286000723 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 375286000724 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 375286000725 [2Fe-2S] cluster binding site [ion binding]; other site 375286000726 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 375286000727 hydrophobic ligand binding site; other site 375286000728 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 375286000729 xanthine permease; Region: pbuX; TIGR03173 375286000730 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 375286000731 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 375286000732 FMN-binding pocket [chemical binding]; other site 375286000733 flavin binding motif; other site 375286000734 phosphate binding motif [ion binding]; other site 375286000735 beta-alpha-beta structure motif; other site 375286000736 NAD binding pocket [chemical binding]; other site 375286000737 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 375286000738 catalytic loop [active] 375286000739 iron binding site [ion binding]; other site 375286000740 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 375286000741 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 375286000742 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 375286000743 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 375286000744 dimerization domain [polypeptide binding]; other site 375286000745 dimer interface [polypeptide binding]; other site 375286000746 catalytic residues [active] 375286000747 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 375286000748 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 375286000749 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 375286000750 protein binding site [polypeptide binding]; other site 375286000751 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 375286000752 active site 375286000753 substrate (anthranilate) binding pocket [chemical binding]; other site 375286000754 product (indole) binding pocket [chemical binding]; other site 375286000755 ribulose/triose binding site [chemical binding]; other site 375286000756 phosphate binding site [ion binding]; other site 375286000757 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 375286000758 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 375286000759 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 375286000760 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 375286000761 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 375286000762 glutamine binding [chemical binding]; other site 375286000763 catalytic triad [active] 375286000764 anthranilate synthase component I; Provisional; Region: PRK13565 375286000765 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 375286000766 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 375286000767 phosphoglycolate phosphatase; Provisional; Region: PRK13222 375286000768 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 375286000769 motif II; other site 375286000770 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 375286000771 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 375286000772 substrate binding site [chemical binding]; other site 375286000773 hexamer interface [polypeptide binding]; other site 375286000774 metal binding site [ion binding]; metal-binding site 375286000775 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 375286000776 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 375286000777 MltA specific insert domain; Region: MltA; smart00925 375286000778 3D domain; Region: 3D; pfam06725 375286000779 enoyl-CoA hydratase; Provisional; Region: PRK05862 375286000780 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 375286000781 substrate binding site [chemical binding]; other site 375286000782 oxyanion hole (OAH) forming residues; other site 375286000783 trimer interface [polypeptide binding]; other site 375286000784 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 375286000785 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 375286000786 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 375286000787 Ligand Binding Site [chemical binding]; other site 375286000788 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 375286000789 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 375286000790 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 375286000791 TolR protein; Region: tolR; TIGR02801 375286000792 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 375286000793 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 375286000794 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 375286000795 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 375286000796 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 375286000797 active site 375286000798 catalytic tetrad [active] 375286000799 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 375286000800 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 375286000801 active site 375286000802 non-prolyl cis peptide bond; other site 375286000803 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 375286000804 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 375286000805 active site 375286000806 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 375286000807 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 375286000808 active site 375286000809 catalytic tetrad [active] 375286000810 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 375286000811 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 375286000812 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375286000813 Walker A/P-loop; other site 375286000814 ATP binding site [chemical binding]; other site 375286000815 Q-loop/lid; other site 375286000816 ABC transporter signature motif; other site 375286000817 Walker B; other site 375286000818 D-loop; other site 375286000819 H-loop/switch region; other site 375286000820 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 375286000821 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 375286000822 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 375286000823 Walker A/P-loop; other site 375286000824 ATP binding site [chemical binding]; other site 375286000825 Q-loop/lid; other site 375286000826 ABC transporter signature motif; other site 375286000827 Walker B; other site 375286000828 D-loop; other site 375286000829 H-loop/switch region; other site 375286000830 Sulphur transport; Region: Sulf_transp; pfam04143 375286000831 Sulphur transport; Region: Sulf_transp; pfam04143 375286000832 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 375286000833 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 375286000834 active site residue [active] 375286000835 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 375286000836 active site residue [active] 375286000837 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 375286000838 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286000839 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 375286000840 substrate binding site [chemical binding]; other site 375286000841 dimerization interface [polypeptide binding]; other site 375286000842 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 375286000843 active site 375286000844 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 375286000845 non-prolyl cis peptide bond; other site 375286000846 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 375286000847 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286000848 dimer interface [polypeptide binding]; other site 375286000849 conserved gate region; other site 375286000850 ABC-ATPase subunit interface; other site 375286000851 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 375286000852 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 375286000853 Walker A/P-loop; other site 375286000854 ATP binding site [chemical binding]; other site 375286000855 Q-loop/lid; other site 375286000856 ABC transporter signature motif; other site 375286000857 Walker B; other site 375286000858 D-loop; other site 375286000859 H-loop/switch region; other site 375286000860 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 375286000861 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 375286000862 Walker A/P-loop; other site 375286000863 ATP binding site [chemical binding]; other site 375286000864 Q-loop/lid; other site 375286000865 ABC transporter signature motif; other site 375286000866 Walker B; other site 375286000867 D-loop; other site 375286000868 H-loop/switch region; other site 375286000869 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 375286000870 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 375286000871 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 375286000872 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 375286000873 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 375286000874 N-terminal plug; other site 375286000875 ligand-binding site [chemical binding]; other site 375286000876 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 375286000877 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 375286000878 N-terminal plug; other site 375286000879 ligand-binding site [chemical binding]; other site 375286000880 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_15; cd08492 375286000881 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 375286000882 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 375286000883 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286000884 dimer interface [polypeptide binding]; other site 375286000885 conserved gate region; other site 375286000886 putative PBP binding loops; other site 375286000887 ABC-ATPase subunit interface; other site 375286000888 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 375286000889 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 375286000890 Flavin binding site [chemical binding]; other site 375286000891 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 375286000892 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 375286000893 Coenzyme A binding pocket [chemical binding]; other site 375286000894 glycerol kinase; Provisional; Region: glpK; PRK00047 375286000895 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 375286000896 N- and C-terminal domain interface [polypeptide binding]; other site 375286000897 active site 375286000898 MgATP binding site [chemical binding]; other site 375286000899 catalytic site [active] 375286000900 metal binding site [ion binding]; metal-binding site 375286000901 glycerol binding site [chemical binding]; other site 375286000902 homotetramer interface [polypeptide binding]; other site 375286000903 homodimer interface [polypeptide binding]; other site 375286000904 FBP binding site [chemical binding]; other site 375286000905 protein IIAGlc interface [polypeptide binding]; other site 375286000906 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 375286000907 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 375286000908 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 375286000909 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 375286000910 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 375286000911 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 375286000912 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 375286000913 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 375286000914 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 375286000915 metal binding site [ion binding]; metal-binding site 375286000916 putative dimer interface [polypeptide binding]; other site 375286000917 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 375286000918 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 375286000919 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 375286000920 acyl-activating enzyme (AAE) consensus motif; other site 375286000921 putative AMP binding site [chemical binding]; other site 375286000922 putative active site [active] 375286000923 putative CoA binding site [chemical binding]; other site 375286000924 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 375286000925 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 375286000926 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 375286000927 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375286000928 Walker A/P-loop; other site 375286000929 ATP binding site [chemical binding]; other site 375286000930 Q-loop/lid; other site 375286000931 ABC transporter signature motif; other site 375286000932 Walker B; other site 375286000933 D-loop; other site 375286000934 H-loop/switch region; other site 375286000935 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 375286000936 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 375286000937 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 375286000938 NAD(P) binding site [chemical binding]; other site 375286000939 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 375286000940 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 375286000941 substrate binding pocket [chemical binding]; other site 375286000942 membrane-bound complex binding site; other site 375286000943 hinge residues; other site 375286000944 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 375286000945 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286000946 dimer interface [polypeptide binding]; other site 375286000947 conserved gate region; other site 375286000948 putative PBP binding loops; other site 375286000949 ABC-ATPase subunit interface; other site 375286000950 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 375286000951 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286000952 dimer interface [polypeptide binding]; other site 375286000953 conserved gate region; other site 375286000954 putative PBP binding loops; other site 375286000955 ABC-ATPase subunit interface; other site 375286000956 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 375286000957 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 375286000958 Walker A/P-loop; other site 375286000959 ATP binding site [chemical binding]; other site 375286000960 Q-loop/lid; other site 375286000961 ABC transporter signature motif; other site 375286000962 Walker B; other site 375286000963 D-loop; other site 375286000964 H-loop/switch region; other site 375286000965 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 375286000966 active site 375286000967 substrate binding pocket [chemical binding]; other site 375286000968 dimer interface [polypeptide binding]; other site 375286000969 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 375286000970 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 375286000971 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 375286000972 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 375286000973 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 375286000974 HlyD family secretion protein; Region: HlyD_3; pfam13437 375286000975 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 375286000976 HAMP domain; Region: HAMP; pfam00672 375286000977 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 375286000978 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286000979 ATP binding site [chemical binding]; other site 375286000980 Mg2+ binding site [ion binding]; other site 375286000981 G-X-G motif; other site 375286000982 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 375286000983 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286000984 active site 375286000985 phosphorylation site [posttranslational modification] 375286000986 intermolecular recognition site; other site 375286000987 dimerization interface [polypeptide binding]; other site 375286000988 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 375286000989 DNA binding site [nucleotide binding] 375286000990 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 375286000991 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 375286000992 eyelet of channel; other site 375286000993 trimer interface [polypeptide binding]; other site 375286000994 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 375286000995 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 375286000996 trimer interface [polypeptide binding]; other site 375286000997 eyelet of channel; other site 375286000998 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 375286000999 diiron binding motif [ion binding]; other site 375286001000 OsmC-like protein; Region: OsmC; cl00767 375286001001 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 375286001002 23S rRNA interface [nucleotide binding]; other site 375286001003 L3 interface [polypeptide binding]; other site 375286001004 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 375286001005 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 375286001006 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 375286001007 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 375286001008 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 375286001009 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 375286001010 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 375286001011 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 375286001012 Peptidase family M23; Region: Peptidase_M23; pfam01551 375286001013 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 375286001014 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 375286001015 active site 375286001016 HIGH motif; other site 375286001017 dimer interface [polypeptide binding]; other site 375286001018 KMSKS motif; other site 375286001019 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 375286001020 RNA binding surface [nucleotide binding]; other site 375286001021 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 375286001022 putative active site [active] 375286001023 dimerization interface [polypeptide binding]; other site 375286001024 putative tRNAtyr binding site [nucleotide binding]; other site 375286001025 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 375286001026 substrate binding site [chemical binding]; other site 375286001027 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 375286001028 catalytic core [active] 375286001029 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 375286001030 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 375286001031 FMN binding site [chemical binding]; other site 375286001032 active site 375286001033 catalytic residues [active] 375286001034 substrate binding site [chemical binding]; other site 375286001035 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 375286001036 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 375286001037 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 375286001038 purine monophosphate binding site [chemical binding]; other site 375286001039 dimer interface [polypeptide binding]; other site 375286001040 putative catalytic residues [active] 375286001041 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 375286001042 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 375286001043 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 375286001044 active site 375286001045 putative DNA-binding cleft [nucleotide binding]; other site 375286001046 dimer interface [polypeptide binding]; other site 375286001047 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 375286001048 RuvA N terminal domain; Region: RuvA_N; pfam01330 375286001049 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 375286001050 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 375286001051 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 375286001052 Walker A motif; other site 375286001053 ATP binding site [chemical binding]; other site 375286001054 Walker B motif; other site 375286001055 arginine finger; other site 375286001056 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 375286001057 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 375286001058 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 375286001059 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 375286001060 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 375286001061 dimerization interface [polypeptide binding]; other site 375286001062 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 375286001063 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375286001064 dimer interface [polypeptide binding]; other site 375286001065 putative CheW interface [polypeptide binding]; other site 375286001066 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 375286001067 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 375286001068 active site 375286001069 HIGH motif; other site 375286001070 nucleotide binding site [chemical binding]; other site 375286001071 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 375286001072 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 375286001073 active site 375286001074 KMSKS motif; other site 375286001075 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 375286001076 tRNA binding surface [nucleotide binding]; other site 375286001077 anticodon binding site; other site 375286001078 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 375286001079 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 375286001080 thiS-thiF/thiG interaction site; other site 375286001081 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 375286001082 ThiS interaction site; other site 375286001083 putative active site [active] 375286001084 tetramer interface [polypeptide binding]; other site 375286001085 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 375286001086 thiamine phosphate binding site [chemical binding]; other site 375286001087 active site 375286001088 pyrophosphate binding site [ion binding]; other site 375286001089 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 375286001090 Part of AAA domain; Region: AAA_19; pfam13245 375286001091 Family description; Region: UvrD_C_2; pfam13538 375286001092 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 375286001093 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 375286001094 putative active site [active] 375286001095 putative substrate binding site [chemical binding]; other site 375286001096 ATP binding site [chemical binding]; other site 375286001097 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 375286001098 DNA polymerase I; Provisional; Region: PRK05755 375286001099 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 375286001100 active site 375286001101 metal binding site 1 [ion binding]; metal-binding site 375286001102 putative 5' ssDNA interaction site; other site 375286001103 metal binding site 3; metal-binding site 375286001104 metal binding site 2 [ion binding]; metal-binding site 375286001105 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 375286001106 putative DNA binding site [nucleotide binding]; other site 375286001107 putative metal binding site [ion binding]; other site 375286001108 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 375286001109 active site 375286001110 catalytic site [active] 375286001111 substrate binding site [chemical binding]; other site 375286001112 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 375286001113 active site 375286001114 DNA binding site [nucleotide binding] 375286001115 catalytic site [active] 375286001116 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 375286001117 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 375286001118 ZIP Zinc transporter; Region: Zip; pfam02535 375286001119 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 375286001120 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 375286001121 active site residue [active] 375286001122 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 375286001123 active site residue [active] 375286001124 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 375286001125 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 375286001126 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 375286001127 [2Fe-2S] cluster binding site [ion binding]; other site 375286001128 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 375286001129 alpha subunit interface [polypeptide binding]; other site 375286001130 active site 375286001131 substrate binding site [chemical binding]; other site 375286001132 Fe binding site [ion binding]; other site 375286001133 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 375286001134 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 375286001135 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 375286001136 substrate binding pocket [chemical binding]; other site 375286001137 chain length determination region; other site 375286001138 substrate-Mg2+ binding site; other site 375286001139 catalytic residues [active] 375286001140 aspartate-rich region 1; other site 375286001141 active site lid residues [active] 375286001142 aspartate-rich region 2; other site 375286001143 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 375286001144 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 375286001145 TPP-binding site; other site 375286001146 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 375286001147 PYR/PP interface [polypeptide binding]; other site 375286001148 dimer interface [polypeptide binding]; other site 375286001149 TPP binding site [chemical binding]; other site 375286001150 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 375286001151 putative GTP cyclohydrolase; Provisional; Region: PRK13674 375286001152 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 375286001153 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 375286001154 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286001155 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 375286001156 dimerization interface [polypeptide binding]; other site 375286001157 substrate binding pocket [chemical binding]; other site 375286001158 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 375286001159 FAD binding domain; Region: FAD_binding_4; pfam01565 375286001160 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 375286001161 FAD binding domain; Region: FAD_binding_4; pfam01565 375286001162 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 375286001163 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 375286001164 Cysteine-rich domain; Region: CCG; pfam02754 375286001165 Cysteine-rich domain; Region: CCG; pfam02754 375286001166 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 375286001167 catalytic residues [active] 375286001168 dimer interface [polypeptide binding]; other site 375286001169 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 375286001170 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 375286001171 Walker A motif; other site 375286001172 ATP binding site [chemical binding]; other site 375286001173 Walker B motif; other site 375286001174 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 375286001175 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 375286001176 Walker A motif; other site 375286001177 ATP binding site [chemical binding]; other site 375286001178 Walker B motif; other site 375286001179 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 375286001180 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 375286001181 catalytic residue [active] 375286001182 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 375286001183 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 375286001184 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 375286001185 putative acetyltransferase; Provisional; Region: PRK03624 375286001186 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 375286001187 Coenzyme A binding pocket [chemical binding]; other site 375286001188 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 375286001189 conserved cys residue [active] 375286001190 putative transporter; Provisional; Region: PRK10504 375286001191 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 375286001192 putative substrate translocation pore; other site 375286001193 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 375286001194 UbiA prenyltransferase family; Region: UbiA; pfam01040 375286001195 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286001196 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286001197 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 375286001198 dimerization interface [polypeptide binding]; other site 375286001199 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 375286001200 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 375286001201 generic binding surface II; other site 375286001202 ssDNA binding site; other site 375286001203 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 375286001204 ATP binding site [chemical binding]; other site 375286001205 putative Mg++ binding site [ion binding]; other site 375286001206 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 375286001207 nucleotide binding region [chemical binding]; other site 375286001208 ATP-binding site [chemical binding]; other site 375286001209 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 375286001210 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 375286001211 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 375286001212 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 375286001213 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 375286001214 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 375286001215 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 375286001216 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 375286001217 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 375286001218 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 375286001219 Protein export membrane protein; Region: SecD_SecF; pfam02355 375286001220 Transcriptional regulators [Transcription]; Region: MarR; COG1846 375286001221 MarR family; Region: MarR_2; pfam12802 375286001222 Uncharacterized conserved protein [Function unknown]; Region: COG2353 375286001223 YceI-like domain; Region: YceI; smart00867 375286001224 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 375286001225 adenylosuccinate lyase; Provisional; Region: PRK09285 375286001226 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 375286001227 tetramer interface [polypeptide binding]; other site 375286001228 active site 375286001229 putative glutathione S-transferase; Provisional; Region: PRK10357 375286001230 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 375286001231 putative C-terminal domain interface [polypeptide binding]; other site 375286001232 putative GSH binding site (G-site) [chemical binding]; other site 375286001233 putative dimer interface [polypeptide binding]; other site 375286001234 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 375286001235 dimer interface [polypeptide binding]; other site 375286001236 N-terminal domain interface [polypeptide binding]; other site 375286001237 putative substrate binding pocket (H-site) [chemical binding]; other site 375286001238 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 375286001239 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 375286001240 heme binding site [chemical binding]; other site 375286001241 ferroxidase pore; other site 375286001242 ferroxidase diiron center [ion binding]; other site 375286001243 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 375286001244 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 375286001245 heme binding site [chemical binding]; other site 375286001246 ferroxidase pore; other site 375286001247 ferroxidase diiron center [ion binding]; other site 375286001248 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 375286001249 TolR protein; Region: tolR; TIGR02801 375286001250 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 375286001251 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 375286001252 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 375286001253 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 375286001254 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 375286001255 active site 375286001256 FMN binding site [chemical binding]; other site 375286001257 substrate binding site [chemical binding]; other site 375286001258 3Fe-4S cluster binding site [ion binding]; other site 375286001259 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 375286001260 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 375286001261 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 375286001262 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 375286001263 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 375286001264 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 375286001265 Ligand Binding Site [chemical binding]; other site 375286001266 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 375286001267 nudix motif; other site 375286001268 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 375286001269 tetramerization interface [polypeptide binding]; other site 375286001270 active site 375286001271 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 375286001272 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 375286001273 ligand binding site [chemical binding]; other site 375286001274 homodimer interface [polypeptide binding]; other site 375286001275 NAD(P) binding site [chemical binding]; other site 375286001276 trimer interface B [polypeptide binding]; other site 375286001277 trimer interface A [polypeptide binding]; other site 375286001278 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 375286001279 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 375286001280 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 375286001281 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286001282 transcriptional activator TtdR; Provisional; Region: PRK09801 375286001283 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 375286001284 putative effector binding pocket; other site 375286001285 dimerization interface [polypeptide binding]; other site 375286001286 glyoxylate carboligase; Provisional; Region: PRK11269 375286001287 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 375286001288 PYR/PP interface [polypeptide binding]; other site 375286001289 dimer interface [polypeptide binding]; other site 375286001290 TPP binding site [chemical binding]; other site 375286001291 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 375286001292 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 375286001293 TPP-binding site [chemical binding]; other site 375286001294 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 375286001295 tartronate semialdehyde reductase; Provisional; Region: PRK15059 375286001296 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 375286001297 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 375286001298 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 375286001299 MOFRL family; Region: MOFRL; pfam05161 375286001300 pyruvate kinase; Provisional; Region: PRK06247 375286001301 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 375286001302 domain interfaces; other site 375286001303 active site 375286001304 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 375286001305 ThiC-associated domain; Region: ThiC-associated; pfam13667 375286001306 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 375286001307 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 375286001308 thiS-thiF/thiG interaction site; other site 375286001309 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 375286001310 ThiS interaction site; other site 375286001311 putative active site [active] 375286001312 tetramer interface [polypeptide binding]; other site 375286001313 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 375286001314 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 375286001315 NAD(P) binding site [chemical binding]; other site 375286001316 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286001317 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 375286001318 putative DNA binding site [nucleotide binding]; other site 375286001319 putative Zn2+ binding site [ion binding]; other site 375286001320 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 375286001321 putative dimerization interface [polypeptide binding]; other site 375286001322 haloacid dehalogenase-like hydrolase family protein; Region: PLN02779 375286001323 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 375286001324 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 375286001325 CoA-ligase; Region: Ligase_CoA; pfam00549 375286001326 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 375286001327 CoA binding domain; Region: CoA_binding; smart00881 375286001328 CoA-ligase; Region: Ligase_CoA; pfam00549 375286001329 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 375286001330 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 375286001331 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 375286001332 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 375286001333 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 375286001334 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 375286001335 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 375286001336 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 375286001337 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 375286001338 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 375286001339 BON domain; Region: BON; pfam04972 375286001340 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 375286001341 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 375286001342 ligand binding site [chemical binding]; other site 375286001343 flexible hinge region; other site 375286001344 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 375286001345 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 375286001346 PYR/PP interface [polypeptide binding]; other site 375286001347 dimer interface [polypeptide binding]; other site 375286001348 TPP binding site [chemical binding]; other site 375286001349 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 375286001350 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 375286001351 TPP-binding site; other site 375286001352 dimer interface [polypeptide binding]; other site 375286001353 formyl-coenzyme A transferase; Provisional; Region: PRK05398 375286001354 CoA-transferase family III; Region: CoA_transf_3; pfam02515 375286001355 formyl-coenzyme A transferase; Provisional; Region: PRK05398 375286001356 CoA-transferase family III; Region: CoA_transf_3; pfam02515 375286001357 NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]; Region: NuoE; COG1905 375286001358 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E family, Tungsten-containing formate dehydrogenase (W-FDH) beta subunit; composed of proteins similar to the W-FDH beta subunit of Methylobacterium extorquens. W-FDH...; Region: TRX_Fd_NuoE_W_FDH_beta; cd03082 375286001359 putative dimer interface [polypeptide binding]; other site 375286001360 [2Fe-2S] cluster binding site [ion binding]; other site 375286001361 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 375286001362 SLBB domain; Region: SLBB; pfam10531 375286001363 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 375286001364 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 375286001365 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 375286001366 catalytic loop [active] 375286001367 iron binding site [ion binding]; other site 375286001368 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 375286001369 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 375286001370 [4Fe-4S] binding site [ion binding]; other site 375286001371 molybdopterin cofactor binding site; other site 375286001372 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 375286001373 molybdopterin cofactor binding site; other site 375286001374 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 375286001375 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 375286001376 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 375286001377 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 375286001378 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 375286001379 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 375286001380 Nitrogen regulatory protein P-II; Region: P-II; smart00938 375286001381 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 375286001382 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 375286001383 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 375286001384 HlyD family secretion protein; Region: HlyD_3; pfam13437 375286001385 Outer membrane efflux protein; Region: OEP; pfam02321 375286001386 Outer membrane efflux protein; Region: OEP; pfam02321 375286001387 hypothetical protein; Provisional; Region: PRK06996 375286001388 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 375286001389 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 375286001390 proline aminopeptidase P II; Provisional; Region: PRK10879 375286001391 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 375286001392 active site 375286001393 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 375286001394 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 375286001395 Substrate binding site; other site 375286001396 metal-binding site 375286001397 Phosphotransferase enzyme family; Region: APH; pfam01636 375286001398 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 375286001399 active site 375286001400 ATP binding site [chemical binding]; other site 375286001401 substrate binding site [chemical binding]; other site 375286001402 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 375286001403 OstA-like protein; Region: OstA; cl00844 375286001404 Organic solvent tolerance protein; Region: OstA_C; pfam04453 375286001405 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 375286001406 SurA N-terminal domain; Region: SurA_N; pfam09312 375286001407 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 375286001408 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 375286001409 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK01909 375286001410 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 375286001411 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 375286001412 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 375286001413 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 375286001414 dimer interface [polypeptide binding]; other site 375286001415 active site 375286001416 metal binding site [ion binding]; metal-binding site 375286001417 glutathione binding site [chemical binding]; other site 375286001418 Protein of unknown function DUF45; Region: DUF45; pfam01863 375286001419 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 375286001420 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 375286001421 putative acyl-acceptor binding pocket; other site 375286001422 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 375286001423 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 375286001424 active site 375286001425 motif I; other site 375286001426 motif II; other site 375286001427 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 375286001428 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 375286001429 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 375286001430 dimer interface [polypeptide binding]; other site 375286001431 motif 1; other site 375286001432 active site 375286001433 motif 2; other site 375286001434 motif 3; other site 375286001435 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 375286001436 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 375286001437 putative active site [active] 375286001438 catalytic triad [active] 375286001439 putative dimer interface [polypeptide binding]; other site 375286001440 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 375286001441 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 375286001442 Transporter associated domain; Region: CorC_HlyC; smart01091 375286001443 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 375286001444 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 375286001445 PhoH-like protein; Region: PhoH; pfam02562 375286001446 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 375286001447 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 375286001448 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 375286001449 FeS/SAM binding site; other site 375286001450 TRAM domain; Region: TRAM; pfam01938 375286001451 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 375286001452 Ligand Binding Site [chemical binding]; other site 375286001453 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 375286001454 FAD binding domain; Region: FAD_binding_4; pfam01565 375286001455 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 375286001456 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 375286001457 homodimer interface [polypeptide binding]; other site 375286001458 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286001459 catalytic residue [active] 375286001460 Transcriptional regulators [Transcription]; Region: GntR; COG1802 375286001461 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375286001462 DNA-binding site [nucleotide binding]; DNA binding site 375286001463 FCD domain; Region: FCD; pfam07729 375286001464 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 375286001465 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 375286001466 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 375286001467 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 375286001468 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 375286001469 dimer interface [polypeptide binding]; other site 375286001470 active site 375286001471 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 375286001472 substrate binding site [chemical binding]; other site 375286001473 catalytic residue [active] 375286001474 Domain of unknown function DUF302; Region: DUF302; pfam03625 375286001475 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 375286001476 Uncharacterized conserved protein [Function unknown]; Region: COG1416 375286001477 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 375286001478 dimerization interface [polypeptide binding]; other site 375286001479 putative DNA binding site [nucleotide binding]; other site 375286001480 putative Zn2+ binding site [ion binding]; other site 375286001481 bacterial SoxC is a member of the sulfite oxidase (SO) family of molybdopterin binding domains. SoxC is involved in oxidation of sulfur compounds during chemolithothrophic growth. Together with SoxD, a small c-type heme containing subunit, it forms a...; Region: bact_SoxC_Moco; cd02113 375286001482 Moco binding site; other site 375286001483 metal coordination site [ion binding]; other site 375286001484 dimerization interface [polypeptide binding]; other site 375286001485 Cytochrome c; Region: Cytochrom_C; pfam00034 375286001486 Cytochrome c; Region: Cytochrom_C; cl11414 375286001487 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 375286001488 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 375286001489 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 375286001490 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 375286001491 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 375286001492 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 375286001493 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 375286001494 active site 375286001495 metal binding site [ion binding]; metal-binding site 375286001496 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 375286001497 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 375286001498 active site residue [active] 375286001499 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 375286001500 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 375286001501 catalytic residues [active] 375286001502 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 375286001503 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 375286001504 dimerization interface [polypeptide binding]; other site 375286001505 putative DNA binding site [nucleotide binding]; other site 375286001506 putative Zn2+ binding site [ion binding]; other site 375286001507 Predicted transporter component [General function prediction only]; Region: COG2391 375286001508 Predicted transporter component [General function prediction only]; Region: COG2391 375286001509 Sulphur transport; Region: Sulf_transp; pfam04143 375286001510 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 375286001511 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 375286001512 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 375286001513 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286001514 ATP binding site [chemical binding]; other site 375286001515 Mg2+ binding site [ion binding]; other site 375286001516 G-X-G motif; other site 375286001517 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 375286001518 ATP binding site [chemical binding]; other site 375286001519 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 375286001520 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 375286001521 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 375286001522 AMIN domain; Region: AMIN; pfam11741 375286001523 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 375286001524 active site 375286001525 metal binding site [ion binding]; metal-binding site 375286001526 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 375286001527 Predicted permeases [General function prediction only]; Region: COG0679 375286001528 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 375286001529 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286001530 active site 375286001531 phosphorylation site [posttranslational modification] 375286001532 intermolecular recognition site; other site 375286001533 dimerization interface [polypeptide binding]; other site 375286001534 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 375286001535 DNA binding residues [nucleotide binding] 375286001536 dimerization interface [polypeptide binding]; other site 375286001537 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 375286001538 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 375286001539 putative active site [active] 375286001540 heme pocket [chemical binding]; other site 375286001541 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 375286001542 dimer interface [polypeptide binding]; other site 375286001543 phosphorylation site [posttranslational modification] 375286001544 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286001545 ATP binding site [chemical binding]; other site 375286001546 Mg2+ binding site [ion binding]; other site 375286001547 G-X-G motif; other site 375286001548 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 375286001549 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 375286001550 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 375286001551 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 375286001552 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 375286001553 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 375286001554 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 375286001555 DNA binding site [nucleotide binding] 375286001556 active site 375286001557 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 375286001558 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 375286001559 active site 375286001560 Int/Topo IB signature motif; other site 375286001561 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 375286001562 putative catalytic site [active] 375286001563 putative metal binding site [ion binding]; other site 375286001564 putative phosphate binding site [ion binding]; other site 375286001565 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 375286001566 putative deacylase active site [active] 375286001567 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 375286001568 UGMP family protein; Validated; Region: PRK09604 375286001569 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 375286001570 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 375286001571 ANTAR domain; Region: ANTAR; pfam03861 375286001572 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 375286001573 NMT1-like family; Region: NMT1_2; pfam13379 375286001574 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 375286001575 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286001576 dimer interface [polypeptide binding]; other site 375286001577 conserved gate region; other site 375286001578 putative PBP binding loops; other site 375286001579 ABC-ATPase subunit interface; other site 375286001580 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 375286001581 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 375286001582 Walker A/P-loop; other site 375286001583 ATP binding site [chemical binding]; other site 375286001584 Q-loop/lid; other site 375286001585 ABC transporter signature motif; other site 375286001586 Walker B; other site 375286001587 D-loop; other site 375286001588 H-loop/switch region; other site 375286001589 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 375286001590 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 375286001591 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 375286001592 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 375286001593 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 375286001594 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 375286001595 [2Fe-2S] cluster binding site [ion binding]; other site 375286001596 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 375286001597 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 375286001598 [4Fe-4S] binding site [ion binding]; other site 375286001599 molybdopterin cofactor binding site; other site 375286001600 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 375286001601 molybdopterin cofactor binding site; other site 375286001602 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 375286001603 glycosyl transferase family protein; Provisional; Region: PRK08136 375286001604 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 375286001605 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 375286001606 active site 375286001607 SAM binding site [chemical binding]; other site 375286001608 homodimer interface [polypeptide binding]; other site 375286001609 Predicted flavoproteins [General function prediction only]; Region: COG2081 375286001610 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 375286001611 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 375286001612 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 375286001613 Yqey-like protein; Region: YqeY; pfam09424 375286001614 DNA primase; Validated; Region: dnaG; PRK05667 375286001615 CHC2 zinc finger; Region: zf-CHC2; pfam01807 375286001616 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 375286001617 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 375286001618 active site 375286001619 metal binding site [ion binding]; metal-binding site 375286001620 interdomain interaction site; other site 375286001621 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 375286001622 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 375286001623 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 375286001624 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 375286001625 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 375286001626 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 375286001627 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286001628 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 375286001629 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 375286001630 DNA binding residues [nucleotide binding] 375286001631 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 375286001632 active site 375286001633 DNA binding site [nucleotide binding] 375286001634 Int/Topo IB signature motif; other site 375286001635 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 375286001636 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 375286001637 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 375286001638 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 375286001639 trimer interface [polypeptide binding]; other site 375286001640 eyelet of channel; other site 375286001641 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 375286001642 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 375286001643 putative substrate translocation pore; other site 375286001644 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 375286001645 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 375286001646 Coenzyme A binding pocket [chemical binding]; other site 375286001647 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286001648 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286001649 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 375286001650 dimerization interface [polypeptide binding]; other site 375286001651 guanine deaminase; Provisional; Region: PRK09228 375286001652 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 375286001653 active site 375286001654 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 375286001655 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 375286001656 XdhC Rossmann domain; Region: XdhC_C; pfam13478 375286001657 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 375286001658 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 375286001659 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 375286001660 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 375286001661 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 375286001662 catalytic loop [active] 375286001663 iron binding site [ion binding]; other site 375286001664 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 375286001665 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 375286001666 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 375286001667 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 375286001668 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 375286001669 active site 375286001670 putative substrate binding pocket [chemical binding]; other site 375286001671 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 375286001672 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 375286001673 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 375286001674 dimerization interface [polypeptide binding]; other site 375286001675 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375286001676 dimer interface [polypeptide binding]; other site 375286001677 putative CheW interface [polypeptide binding]; other site 375286001678 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 375286001679 unknown domain/N-carbamoyl-L-amino acid hydrolase fusion protein; Provisional; Region: PRK13799 375286001680 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 375286001681 active site 375286001682 metal binding site [ion binding]; metal-binding site 375286001683 dimer interface [polypeptide binding]; other site 375286001684 xanthine permease; Region: pbuX; TIGR03173 375286001685 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286001686 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286001687 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_4; cd08463 375286001688 putative substrate binding pocket [chemical binding]; other site 375286001689 putative dimerization interface [polypeptide binding]; other site 375286001690 Predicted membrane protein [Function unknown]; Region: COG3748 375286001691 Protein of unknown function (DUF989); Region: DUF989; pfam06181 375286001692 Cytochrome c; Region: Cytochrom_C; pfam00034 375286001693 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 375286001694 active sites [active] 375286001695 tetramer interface [polypeptide binding]; other site 375286001696 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 375286001697 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 375286001698 trimer interface [polypeptide binding]; other site 375286001699 eyelet of channel; other site 375286001700 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 375286001701 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 375286001702 active site 375286001703 catalytic site [active] 375286001704 tetramer interface [polypeptide binding]; other site 375286001705 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 375286001706 active site 375286001707 homotetramer interface [polypeptide binding]; other site 375286001708 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 375286001709 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 375286001710 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286001711 ATP binding site [chemical binding]; other site 375286001712 Mg2+ binding site [ion binding]; other site 375286001713 G-X-G motif; other site 375286001714 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 375286001715 Autotransporter beta-domain; Region: Autotransporter; pfam03797 375286001716 Autotransporter beta-domain; Region: Autotransporter; smart00869 375286001717 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 375286001718 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 375286001719 binding surface 375286001720 TPR motif; other site 375286001721 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 375286001722 binding surface 375286001723 TPR motif; other site 375286001724 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 375286001725 binding surface 375286001726 TPR motif; other site 375286001727 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 375286001728 binding surface 375286001729 TPR motif; other site 375286001730 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 375286001731 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 375286001732 ligand-binding site [chemical binding]; other site 375286001733 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 375286001734 CRISPR/Cas system-associated protein Cas8b; Region: Cas8b_I-B; cl09718 375286001735 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 375286001736 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 375286001737 S-adenosylmethionine binding site [chemical binding]; other site 375286001738 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286001739 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286001740 LysR substrate binding domain; Region: LysR_substrate; pfam03466 375286001741 dimerization interface [polypeptide binding]; other site 375286001742 PAS domain; Region: PAS_9; pfam13426 375286001743 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 375286001744 putative active site [active] 375286001745 heme pocket [chemical binding]; other site 375286001746 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 375286001747 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 375286001748 dimerization interface [polypeptide binding]; other site 375286001749 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375286001750 dimer interface [polypeptide binding]; other site 375286001751 putative CheW interface [polypeptide binding]; other site 375286001752 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 375286001753 DEAD-like helicases superfamily; Region: DEXDc; smart00487 375286001754 ATP binding site [chemical binding]; other site 375286001755 Mg++ binding site [ion binding]; other site 375286001756 motif III; other site 375286001757 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 375286001758 nucleotide binding region [chemical binding]; other site 375286001759 ATP-binding site [chemical binding]; other site 375286001760 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 375286001761 active site 375286001762 HIGH motif; other site 375286001763 nucleotide binding site [chemical binding]; other site 375286001764 active site 375286001765 KMSKS motif; other site 375286001766 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286001767 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 375286001768 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 375286001769 dimerization interface [polypeptide binding]; other site 375286001770 Pirin-related protein [General function prediction only]; Region: COG1741 375286001771 Pirin; Region: Pirin; pfam02678 375286001772 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK12457 375286001773 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 375286001774 rhodanese superfamily protein; Provisional; Region: PRK05320 375286001775 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 375286001776 active site residue [active] 375286001777 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 375286001778 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 375286001779 putative active site [active] 375286001780 putative PHP Thumb interface [polypeptide binding]; other site 375286001781 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 375286001782 generic binding surface II; other site 375286001783 generic binding surface I; other site 375286001784 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 375286001785 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 375286001786 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 375286001787 Walker A/P-loop; other site 375286001788 ATP binding site [chemical binding]; other site 375286001789 Q-loop/lid; other site 375286001790 ABC transporter signature motif; other site 375286001791 Walker B; other site 375286001792 D-loop; other site 375286001793 H-loop/switch region; other site 375286001794 ribonuclease G; Provisional; Region: PRK11712 375286001795 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 375286001796 homodimer interface [polypeptide binding]; other site 375286001797 oligonucleotide binding site [chemical binding]; other site 375286001798 Maf-like protein; Region: Maf; pfam02545 375286001799 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 375286001800 active site 375286001801 dimer interface [polypeptide binding]; other site 375286001802 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 375286001803 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 375286001804 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 375286001805 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 375286001806 active site 375286001807 (T/H)XGH motif; other site 375286001808 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 375286001809 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 375286001810 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 375286001811 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 375286001812 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 375286001813 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 375286001814 hypothetical protein; Validated; Region: PRK00110 375286001815 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 375286001816 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 375286001817 Walker A motif; other site 375286001818 ATP binding site [chemical binding]; other site 375286001819 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286001820 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286001821 LysR substrate binding domain; Region: LysR_substrate; pfam03466 375286001822 dimerization interface [polypeptide binding]; other site 375286001823 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 375286001824 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 375286001825 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 375286001826 dimerization interface [polypeptide binding]; other site 375286001827 active site 375286001828 EamA-like transporter family; Region: EamA; pfam00892 375286001829 EamA-like transporter family; Region: EamA; pfam00892 375286001830 short chain dehydrogenase; Provisional; Region: PRK08339 375286001831 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 375286001832 putative NAD(P) binding site [chemical binding]; other site 375286001833 putative active site [active] 375286001834 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 375286001835 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 375286001836 NADP binding site [chemical binding]; other site 375286001837 dimer interface [polypeptide binding]; other site 375286001838 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 375286001839 aminopeptidase N; Provisional; Region: pepN; PRK14015 375286001840 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 375286001841 active site 375286001842 Zn binding site [ion binding]; other site 375286001843 fructose-1,6-bisphosphatase family protein; Region: PLN02628 375286001844 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 375286001845 AMP binding site [chemical binding]; other site 375286001846 metal binding site [ion binding]; metal-binding site 375286001847 active site 375286001848 putative acyltransferase; Provisional; Region: PRK05790 375286001849 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 375286001850 dimer interface [polypeptide binding]; other site 375286001851 active site 375286001852 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 375286001853 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 375286001854 NAD(P) binding site [chemical binding]; other site 375286001855 homotetramer interface [polypeptide binding]; other site 375286001856 homodimer interface [polypeptide binding]; other site 375286001857 active site 375286001858 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 375286001859 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 375286001860 catalytic residues [active] 375286001861 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 375286001862 active site 375286001863 catalytic site [active] 375286001864 substrate binding site [chemical binding]; other site 375286001865 S4 domain; Region: S4_2; pfam13275 375286001866 Predicted membrane protein [Function unknown]; Region: COG3686 375286001867 exonuclease I; Provisional; Region: sbcB; PRK11779 375286001868 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 375286001869 active site 375286001870 catalytic site [active] 375286001871 substrate binding site [chemical binding]; other site 375286001872 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 375286001873 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 375286001874 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 375286001875 ligand binding site [chemical binding]; other site 375286001876 flexible hinge region; other site 375286001877 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286001878 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286001879 metal binding site [ion binding]; metal-binding site 375286001880 active site 375286001881 I-site; other site 375286001882 HDOD domain; Region: HDOD; pfam08668 375286001883 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 375286001884 Zn2+ binding site [ion binding]; other site 375286001885 Mg2+ binding site [ion binding]; other site 375286001886 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286001887 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286001888 metal binding site [ion binding]; metal-binding site 375286001889 active site 375286001890 I-site; other site 375286001891 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 375286001892 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 375286001893 LysE type translocator; Region: LysE; cl00565 375286001894 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 375286001895 Cupin domain; Region: Cupin_2; cl17218 375286001896 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 375286001897 Helix-turn-helix domain; Region: HTH_38; pfam13936 375286001898 Integrase core domain; Region: rve; pfam00665 375286001899 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 375286001900 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 375286001901 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286001902 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286001903 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 375286001904 putative effector binding pocket; other site 375286001905 dimerization interface [polypeptide binding]; other site 375286001906 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 375286001907 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 375286001908 dimer interface [polypeptide binding]; other site 375286001909 putative metal binding site [ion binding]; other site 375286001910 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 375286001911 DNA phosphorothioation-associated DGQHR protein 1; Region: DGQHR_dnd_1; TIGR04172 375286001912 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 375286001913 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 375286001914 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 375286001915 active site 375286001916 HIGH motif; other site 375286001917 nucleotide binding site [chemical binding]; other site 375286001918 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 375286001919 KMSKS motif; other site 375286001920 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 375286001921 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 375286001922 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 375286001923 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 375286001924 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 375286001925 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 375286001926 putative active site [active] 375286001927 catalytic site [active] 375286001928 putative metal binding site [ion binding]; other site 375286001929 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 375286001930 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 375286001931 motif 1; other site 375286001932 active site 375286001933 motif 2; other site 375286001934 motif 3; other site 375286001935 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 375286001936 DHHA1 domain; Region: DHHA1; pfam02272 375286001937 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 375286001938 CPxP motif; other site 375286001939 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 375286001940 Ligand binding site [chemical binding]; other site 375286001941 Electron transfer flavoprotein domain; Region: ETF; pfam01012 375286001942 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 375286001943 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 375286001944 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 375286001945 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 375286001946 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 375286001947 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 375286001948 active site 375286001949 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 375286001950 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 375286001951 Cold-inducible protein YdjO; Region: YdjO; pfam14169 375286001952 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 375286001953 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 375286001954 RimM N-terminal domain; Region: RimM; pfam01782 375286001955 PRC-barrel domain; Region: PRC; pfam05239 375286001956 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 375286001957 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 375286001958 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 375286001959 putative active site [active] 375286001960 putative CoA binding site [chemical binding]; other site 375286001961 nudix motif; other site 375286001962 metal binding site [ion binding]; metal-binding site 375286001963 CobD/CbiB family protein; Provisional; Region: PRK07630 375286001964 CHASE domain; Region: CHASE; pfam03924 375286001965 PAS domain; Region: PAS_9; pfam13426 375286001966 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 375286001967 putative active site [active] 375286001968 heme pocket [chemical binding]; other site 375286001969 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286001970 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286001971 metal binding site [ion binding]; metal-binding site 375286001972 active site 375286001973 I-site; other site 375286001974 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 375286001975 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 375286001976 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 375286001977 DXD motif; other site 375286001978 HEAT repeats; Region: HEAT_2; pfam13646 375286001979 HEAT repeat; Region: HEAT; pfam02985 375286001980 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 375286001981 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 375286001982 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 375286001983 Repair protein; Region: Repair_PSII; pfam04536 375286001984 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 375286001985 Repair protein; Region: Repair_PSII; pfam04536 375286001986 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 375286001987 EamA-like transporter family; Region: EamA; pfam00892 375286001988 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 375286001989 EamA-like transporter family; Region: EamA; pfam00892 375286001990 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 375286001991 active site 375286001992 dimer interface [polypeptide binding]; other site 375286001993 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 375286001994 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 375286001995 tetramer interfaces [polypeptide binding]; other site 375286001996 binuclear metal-binding site [ion binding]; other site 375286001997 thiamine monophosphate kinase; Provisional; Region: PRK05731 375286001998 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 375286001999 ATP binding site [chemical binding]; other site 375286002000 dimerization interface [polypeptide binding]; other site 375286002001 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 375286002002 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 375286002003 malic enzyme; Reviewed; Region: PRK12862 375286002004 Malate dehydrogenase enzyme; Region: Malate_DH; pfam12434 375286002005 Malic enzyme, N-terminal domain; Region: malic; pfam00390 375286002006 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 375286002007 putative NAD(P) binding site [chemical binding]; other site 375286002008 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 375286002009 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 375286002010 Predicted transcriptional regulator [Transcription]; Region: COG1959 375286002011 Transcriptional regulator; Region: Rrf2; cl17282 375286002012 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 375286002013 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 375286002014 heme-binding site [chemical binding]; other site 375286002015 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 375286002016 FAD binding pocket [chemical binding]; other site 375286002017 FAD binding motif [chemical binding]; other site 375286002018 phosphate binding motif [ion binding]; other site 375286002019 beta-alpha-beta structure motif; other site 375286002020 NAD binding pocket [chemical binding]; other site 375286002021 Heme binding pocket [chemical binding]; other site 375286002022 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 375286002023 dimer interface [polypeptide binding]; other site 375286002024 phosphorylation site [posttranslational modification] 375286002025 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286002026 ATP binding site [chemical binding]; other site 375286002027 Mg2+ binding site [ion binding]; other site 375286002028 G-X-G motif; other site 375286002029 Response regulator receiver domain; Region: Response_reg; pfam00072 375286002030 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286002031 active site 375286002032 phosphorylation site [posttranslational modification] 375286002033 intermolecular recognition site; other site 375286002034 dimerization interface [polypeptide binding]; other site 375286002035 transcriptional regulator RcsB; Provisional; Region: PRK10840 375286002036 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286002037 active site 375286002038 phosphorylation site [posttranslational modification] 375286002039 intermolecular recognition site; other site 375286002040 dimerization interface [polypeptide binding]; other site 375286002041 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 375286002042 DNA binding residues [nucleotide binding] 375286002043 dimerization interface [polypeptide binding]; other site 375286002044 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 375286002045 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 375286002046 Predicted membrane protein [Function unknown]; Region: COG2860 375286002047 UPF0126 domain; Region: UPF0126; pfam03458 375286002048 UPF0126 domain; Region: UPF0126; pfam03458 375286002049 transcription termination factor Rho; Provisional; Region: rho; PRK09376 375286002050 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 375286002051 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 375286002052 RNA binding site [nucleotide binding]; other site 375286002053 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 375286002054 multimer interface [polypeptide binding]; other site 375286002055 Walker A motif; other site 375286002056 ATP binding site [chemical binding]; other site 375286002057 Walker B motif; other site 375286002058 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 375286002059 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 375286002060 catalytic residues [active] 375286002061 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 375286002062 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 375286002063 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 375286002064 Family description; Region: UvrD_C_2; pfam13538 375286002065 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 375286002066 TIGR02449 family protein; Region: TIGR02449 375286002067 Cell division protein ZapA; Region: ZapA; pfam05164 375286002068 EVE domain; Region: EVE; cl00728 375286002069 exopolysaccharide biosynthesis operon protein EpsL; Region: EpsL; TIGR03014 375286002070 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 375286002071 Bacterial sugar transferase; Region: Bac_transf; pfam02397 375286002072 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 375286002073 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 375286002074 SLBB domain; Region: SLBB; pfam10531 375286002075 SLBB domain; Region: SLBB; pfam10531 375286002076 chain length determinant protein EpsF; Region: EpsF; TIGR03017 375286002077 Chain length determinant protein; Region: Wzz; pfam02706 375286002078 chain length determinant protein tyrosine kinase EpsG; Region: EpsG; TIGR03029 375286002079 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 375286002080 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 375286002081 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 375286002082 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 375286002083 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 375286002084 active site 375286002085 O-Antigen ligase; Region: Wzy_C; pfam04932 375286002086 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 375286002087 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 375286002088 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 375286002089 trimer interface [polypeptide binding]; other site 375286002090 active site 375286002091 substrate binding site [chemical binding]; other site 375286002092 CoA binding site [chemical binding]; other site 375286002093 colanic acid biosynthesis glycosyltransferase WcaL; Provisional; Region: PRK15427 375286002094 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 375286002095 putative ADP-binding pocket [chemical binding]; other site 375286002096 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 375286002097 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 375286002098 DXD motif; other site 375286002099 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 375286002100 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 375286002101 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 375286002102 anti sigma factor interaction site; other site 375286002103 regulatory phosphorylation site [posttranslational modification]; other site 375286002104 UDP-glucose 4-epimerase; Region: PLN02240 375286002105 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 375286002106 NAD binding site [chemical binding]; other site 375286002107 homodimer interface [polypeptide binding]; other site 375286002108 active site 375286002109 substrate binding site [chemical binding]; other site 375286002110 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 375286002111 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 375286002112 active site 375286002113 Substrate binding site; other site 375286002114 Mg++ binding site; other site 375286002115 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 375286002116 putative trimer interface [polypeptide binding]; other site 375286002117 putative CoA binding site [chemical binding]; other site 375286002118 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 375286002119 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 375286002120 Substrate binding site; other site 375286002121 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 375286002122 colanic acid exporter; Provisional; Region: PRK10459 375286002123 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 375286002124 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 375286002125 active site 375286002126 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 375286002127 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 375286002128 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286002129 The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold; Region: PBP2_IlvR; cd08453 375286002130 putative dimerization interface [polypeptide binding]; other site 375286002131 putative substrate binding pocket [chemical binding]; other site 375286002132 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 375286002133 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 375286002134 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286002135 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286002136 metal binding site [ion binding]; metal-binding site 375286002137 active site 375286002138 I-site; other site 375286002139 Cytochrome c; Region: Cytochrom_C; cl11414 375286002140 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 375286002141 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 375286002142 dimerization interface [polypeptide binding]; other site 375286002143 ligand binding site [chemical binding]; other site 375286002144 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375286002145 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 375286002146 TM-ABC transporter signature motif; other site 375286002147 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 375286002148 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 375286002149 TM-ABC transporter signature motif; other site 375286002150 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 375286002151 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 375286002152 Walker A/P-loop; other site 375286002153 ATP binding site [chemical binding]; other site 375286002154 Q-loop/lid; other site 375286002155 ABC transporter signature motif; other site 375286002156 Walker B; other site 375286002157 D-loop; other site 375286002158 H-loop/switch region; other site 375286002159 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 375286002160 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 375286002161 Walker A/P-loop; other site 375286002162 ATP binding site [chemical binding]; other site 375286002163 Q-loop/lid; other site 375286002164 ABC transporter signature motif; other site 375286002165 Walker B; other site 375286002166 D-loop; other site 375286002167 H-loop/switch region; other site 375286002168 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 375286002169 Amidase; Region: Amidase; cl11426 375286002170 allantoate amidohydrolase; Reviewed; Region: PRK09290 375286002171 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 375286002172 active site 375286002173 metal binding site [ion binding]; metal-binding site 375286002174 dimer interface [polypeptide binding]; other site 375286002175 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 375286002176 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 375286002177 non-specific DNA binding site [nucleotide binding]; other site 375286002178 salt bridge; other site 375286002179 sequence-specific DNA binding site [nucleotide binding]; other site 375286002180 Cupin domain; Region: Cupin_2; pfam07883 375286002181 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 375286002182 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 375286002183 Autotransporter beta-domain; Region: Autotransporter; smart00869 375286002184 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 375286002185 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 375286002186 dimerization interface [polypeptide binding]; other site 375286002187 ligand binding site [chemical binding]; other site 375286002188 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 375286002189 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 375286002190 putative DNA binding site [nucleotide binding]; other site 375286002191 putative Zn2+ binding site [ion binding]; other site 375286002192 AsnC family; Region: AsnC_trans_reg; pfam01037 375286002193 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 375286002194 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 375286002195 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 375286002196 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 375286002197 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 375286002198 catalytic residues [active] 375286002199 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 375286002200 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 375286002201 active site 375286002202 Zn binding site [ion binding]; other site 375286002203 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 375286002204 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 375286002205 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 375286002206 homodimer interface [polypeptide binding]; other site 375286002207 NADP binding site [chemical binding]; other site 375286002208 substrate binding site [chemical binding]; other site 375286002209 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 375286002210 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 375286002211 dimer interface [polypeptide binding]; other site 375286002212 TPP-binding site [chemical binding]; other site 375286002213 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 375286002214 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 375286002215 E3 interaction surface; other site 375286002216 lipoyl attachment site [posttranslational modification]; other site 375286002217 e3 binding domain; Region: E3_binding; pfam02817 375286002218 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 375286002219 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 375286002220 proteasome_protease_HslV. This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded proteins; Region: proteasome_protease_HslV; cd01906 375286002221 active site 375286002222 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 375286002223 E3 interaction surface; other site 375286002224 lipoyl attachment site [posttranslational modification]; other site 375286002225 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 375286002226 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 375286002227 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 375286002228 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 375286002229 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 375286002230 binding surface 375286002231 TPR repeat; Region: TPR_11; pfam13414 375286002232 TPR motif; other site 375286002233 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 375286002234 active site 375286002235 catalytic triad [active] 375286002236 oxyanion hole [active] 375286002237 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 375286002238 NlpC/P60 family; Region: NLPC_P60; pfam00877 375286002239 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 375286002240 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 375286002241 inhibitor-cofactor binding pocket; inhibition site 375286002242 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286002243 catalytic residue [active] 375286002244 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 375286002245 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 375286002246 catalytic loop [active] 375286002247 iron binding site [ion binding]; other site 375286002248 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 375286002249 FAD binding pocket [chemical binding]; other site 375286002250 FAD binding motif [chemical binding]; other site 375286002251 phosphate binding motif [ion binding]; other site 375286002252 beta-alpha-beta structure motif; other site 375286002253 NAD binding pocket [chemical binding]; other site 375286002254 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 375286002255 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 375286002256 putative NAD(P) binding site [chemical binding]; other site 375286002257 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 375286002258 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 375286002259 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 375286002260 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 375286002261 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 375286002262 Walker A motif; other site 375286002263 ATP binding site [chemical binding]; other site 375286002264 Walker B motif; other site 375286002265 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 375286002266 S-adenosylmethionine binding site [chemical binding]; other site 375286002267 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 375286002268 putative active site [active] 375286002269 short chain dehydrogenase; Provisional; Region: PRK06123 375286002270 classical (c) SDRs; Region: SDR_c; cd05233 375286002271 NAD(P) binding site [chemical binding]; other site 375286002272 active site 375286002273 Ecotin; Region: Ecotin; pfam03974 375286002274 secondary substrate binding site; other site 375286002275 primary substrate binding site; other site 375286002276 inhibition loop; other site 375286002277 dimerization interface [polypeptide binding]; other site 375286002278 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 375286002279 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 375286002280 Predicted membrane protein [Function unknown]; Region: COG1289 375286002281 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 375286002282 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 375286002283 heat shock protein 90; Provisional; Region: PRK05218 375286002284 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286002285 ATP binding site [chemical binding]; other site 375286002286 Mg2+ binding site [ion binding]; other site 375286002287 G-X-G motif; other site 375286002288 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 375286002289 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375286002290 DNA-binding site [nucleotide binding]; DNA binding site 375286002291 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 375286002292 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286002293 homodimer interface [polypeptide binding]; other site 375286002294 catalytic residue [active] 375286002295 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 375286002296 EamA-like transporter family; Region: EamA; pfam00892 375286002297 EamA-like transporter family; Region: EamA; pfam00892 375286002298 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 375286002299 homotrimer interaction site [polypeptide binding]; other site 375286002300 putative active site [active] 375286002301 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 375286002302 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 375286002303 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286002304 homodimer interface [polypeptide binding]; other site 375286002305 catalytic residue [active] 375286002306 PAS fold; Region: PAS_4; pfam08448 375286002307 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286002308 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286002309 metal binding site [ion binding]; metal-binding site 375286002310 active site 375286002311 I-site; other site 375286002312 Uncharacterized conserved protein [Function unknown]; Region: COG5361 375286002313 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 375286002314 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 375286002315 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 375286002316 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 375286002317 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 375286002318 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 375286002319 CAP-like domain; other site 375286002320 active site 375286002321 primary dimer interface [polypeptide binding]; other site 375286002322 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 375286002323 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 375286002324 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286002325 ATP binding site [chemical binding]; other site 375286002326 Mg2+ binding site [ion binding]; other site 375286002327 G-X-G motif; other site 375286002328 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 375286002329 anchoring element; other site 375286002330 dimer interface [polypeptide binding]; other site 375286002331 ATP binding site [chemical binding]; other site 375286002332 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 375286002333 active site 375286002334 putative metal-binding site [ion binding]; other site 375286002335 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 375286002336 Response regulator receiver domain; Region: Response_reg; pfam00072 375286002337 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286002338 active site 375286002339 phosphorylation site [posttranslational modification] 375286002340 intermolecular recognition site; other site 375286002341 dimerization interface [polypeptide binding]; other site 375286002342 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 375286002343 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 375286002344 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 375286002345 Walker A motif; other site 375286002346 ATP binding site [chemical binding]; other site 375286002347 Walker B motif; other site 375286002348 arginine finger; other site 375286002349 Site-specific recombinase; Region: SpecificRecomb; pfam10136 375286002350 Cytochrome c553 [Energy production and conversion]; Region: COG2863 375286002351 Cytochrome c553 [Energy production and conversion]; Region: COG2863 375286002352 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 375286002353 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 375286002354 Nitroreductase-like family 5. 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_5; cd02148 375286002355 putative FMN binding site [chemical binding]; other site 375286002356 endonuclease III; Provisional; Region: PRK10702 375286002357 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 375286002358 minor groove reading motif; other site 375286002359 helix-hairpin-helix signature motif; other site 375286002360 substrate binding pocket [chemical binding]; other site 375286002361 active site 375286002362 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 375286002363 ferredoxin; Provisional; Region: PRK08764 375286002364 Putative Fe-S cluster; Region: FeS; pfam04060 375286002365 4Fe-4S binding domain; Region: Fer4; pfam00037 375286002366 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 375286002367 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 375286002368 Ferredoxin [Energy production and conversion]; Region: COG1146 375286002369 4Fe-4S binding domain; Region: Fer4; cl02805 375286002370 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 375286002371 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 375286002372 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 375286002373 transmembrane helices; other site 375286002374 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 375286002375 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 375286002376 dimerization interface [polypeptide binding]; other site 375286002377 ligand binding site [chemical binding]; other site 375286002378 NADP binding site [chemical binding]; other site 375286002379 catalytic site [active] 375286002380 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; pfam09650 375286002381 Acyl CoA binding protein; Region: ACBP; pfam00887 375286002382 acyl-CoA binding pocket [chemical binding]; other site 375286002383 CoA binding site [chemical binding]; other site 375286002384 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 375286002385 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 375286002386 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 375286002387 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 375286002388 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 375286002389 putative MPT binding site; other site 375286002390 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 375286002391 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 375286002392 Walker A/P-loop; other site 375286002393 ATP binding site [chemical binding]; other site 375286002394 Q-loop/lid; other site 375286002395 ABC transporter signature motif; other site 375286002396 Walker B; other site 375286002397 D-loop; other site 375286002398 H-loop/switch region; other site 375286002399 TOBE domain; Region: TOBE_2; pfam08402 375286002400 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 375286002401 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286002402 dimer interface [polypeptide binding]; other site 375286002403 conserved gate region; other site 375286002404 putative PBP binding loops; other site 375286002405 ABC-ATPase subunit interface; other site 375286002406 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286002407 dimer interface [polypeptide binding]; other site 375286002408 conserved gate region; other site 375286002409 putative PBP binding loops; other site 375286002410 ABC-ATPase subunit interface; other site 375286002411 Phasin protein; Region: Phasin_2; pfam09361 375286002412 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 375286002413 EamA-like transporter family; Region: EamA; pfam00892 375286002414 EamA-like transporter family; Region: EamA; pfam00892 375286002415 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 375286002416 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 375286002417 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 375286002418 Transcriptional regulator [Transcription]; Region: IclR; COG1414 375286002419 Bacterial transcriptional regulator; Region: IclR; pfam01614 375286002420 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 375286002421 Predicted flavoprotein [General function prediction only]; Region: COG0431 375286002422 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 375286002423 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 375286002424 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 375286002425 active site 375286002426 catalytic tetrad [active] 375286002427 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 375286002428 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 375286002429 substrate binding pocket [chemical binding]; other site 375286002430 membrane-bound complex binding site; other site 375286002431 hinge residues; other site 375286002432 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 375286002433 FMN reductase, SsuE family; Region: FMN_reduc_SsuE; TIGR03567 375286002434 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 375286002435 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 375286002436 substrate binding pocket [chemical binding]; other site 375286002437 membrane-bound complex binding site; other site 375286002438 hinge residues; other site 375286002439 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 375286002440 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 375286002441 active site 375286002442 dimer interface [polypeptide binding]; other site 375286002443 non-prolyl cis peptide bond; other site 375286002444 insertion regions; other site 375286002445 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 375286002446 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286002447 putative PBP binding loops; other site 375286002448 dimer interface [polypeptide binding]; other site 375286002449 ABC-ATPase subunit interface; other site 375286002450 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 375286002451 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375286002452 Walker A/P-loop; other site 375286002453 ATP binding site [chemical binding]; other site 375286002454 Q-loop/lid; other site 375286002455 ABC transporter signature motif; other site 375286002456 Walker B; other site 375286002457 D-loop; other site 375286002458 H-loop/switch region; other site 375286002459 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 375286002460 EAL domain; Region: EAL; pfam00563 375286002461 Serine hydrolase; Region: Ser_hydrolase; pfam06821 375286002462 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 375286002463 Cytochrome c2 [Energy production and conversion]; Region: COG3474 375286002464 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 375286002465 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 375286002466 catalytic residue [active] 375286002467 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_2; cd08822 375286002468 putative active site [active] 375286002469 putative substrate binding site [chemical binding]; other site 375286002470 putative cosubstrate binding site; other site 375286002471 catalytic site [active] 375286002472 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 375286002473 ACT domain; Region: ACT_6; pfam13740 375286002474 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 375286002475 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 375286002476 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286002477 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 375286002478 putative dimerization interface [polypeptide binding]; other site 375286002479 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 375286002480 CIMS - Cobalamine-independent methonine synthase, or MetE, N-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_N_terminal_like; cd03312 375286002481 THF binding site; other site 375286002482 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 375286002483 substrate binding site [chemical binding]; other site 375286002484 THF binding site; other site 375286002485 zinc-binding site [ion binding]; other site 375286002486 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4727 375286002487 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 375286002488 hypothetical protein; Validated; Region: PRK06217 375286002489 RNA polymerase sigma factor; Provisional; Region: PRK12528 375286002490 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286002491 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 375286002492 DNA binding residues [nucleotide binding] 375286002493 fec operon regulator FecR; Reviewed; Region: PRK09774 375286002494 FecR protein; Region: FecR; pfam04773 375286002495 Secretin and TonB N terminus short domain; Region: STN; smart00965 375286002496 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 375286002497 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 375286002498 N-terminal plug; other site 375286002499 ligand-binding site [chemical binding]; other site 375286002500 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 375286002501 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 375286002502 putative substrate translocation pore; other site 375286002503 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 375286002504 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375286002505 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 375286002506 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286002507 active site 375286002508 phosphorylation site [posttranslational modification] 375286002509 intermolecular recognition site; other site 375286002510 dimerization interface [polypeptide binding]; other site 375286002511 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 375286002512 DNA binding residues [nucleotide binding] 375286002513 dimerization interface [polypeptide binding]; other site 375286002514 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 375286002515 haemagglutination activity domain; Region: Haemagg_act; pfam05860 375286002516 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 375286002517 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 375286002518 Surface antigen; Region: Bac_surface_Ag; pfam01103 375286002519 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 375286002520 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 375286002521 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 375286002522 XdhC Rossmann domain; Region: XdhC_C; pfam13478 375286002523 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 375286002524 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 375286002525 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 375286002526 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 375286002527 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 375286002528 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 375286002529 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 375286002530 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286002531 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286002532 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 375286002533 putative effector binding pocket; other site 375286002534 dimerization interface [polypeptide binding]; other site 375286002535 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 375286002536 Ligand binding site; other site 375286002537 metal-binding site 375286002538 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 375286002539 amidase; Provisional; Region: PRK08310 375286002540 indole-3-acetamide amidohydrolase; Region: PLN02722 375286002541 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 375286002542 SnoaL-like domain; Region: SnoaL_3; pfam13474 375286002543 dihydroorotase; Provisional; Region: PRK09237 375286002544 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 375286002545 active site 375286002546 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 375286002547 MarR family; Region: MarR_2; cl17246 375286002548 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 375286002549 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 375286002550 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 375286002551 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 375286002552 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 375286002553 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 375286002554 catalytic loop [active] 375286002555 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 375286002556 iron binding site [ion binding]; other site 375286002557 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 375286002558 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 375286002559 putative hydrophobic ligand binding site [chemical binding]; other site 375286002560 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 375286002561 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 375286002562 ligand binding site [chemical binding]; other site 375286002563 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 375286002564 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375286002565 TM-ABC transporter signature motif; other site 375286002566 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 375286002567 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 375286002568 TM-ABC transporter signature motif; other site 375286002569 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 375286002570 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 375286002571 Walker A/P-loop; other site 375286002572 ATP binding site [chemical binding]; other site 375286002573 Q-loop/lid; other site 375286002574 ABC transporter signature motif; other site 375286002575 Walker B; other site 375286002576 D-loop; other site 375286002577 H-loop/switch region; other site 375286002578 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 375286002579 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 375286002580 Walker A/P-loop; other site 375286002581 ATP binding site [chemical binding]; other site 375286002582 Q-loop/lid; other site 375286002583 ABC transporter signature motif; other site 375286002584 Walker B; other site 375286002585 D-loop; other site 375286002586 H-loop/switch region; other site 375286002587 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 375286002588 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 375286002589 XdhC Rossmann domain; Region: XdhC_C; pfam13478 375286002590 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 375286002591 XapX domain; Region: XapX; TIGR03510 375286002592 XapX domain; Region: XapX; TIGR03510 375286002593 Uncharacterized conserved protein [Function unknown]; Region: COG5361 375286002594 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 375286002595 Uncharacterized conserved protein [Function unknown]; Region: COG5361 375286002596 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 375286002597 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 375286002598 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 375286002599 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 375286002600 active site 375286002601 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 375286002602 sensor kinase CusS; Provisional; Region: PRK09835 375286002603 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 375286002604 dimerization interface [polypeptide binding]; other site 375286002605 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 375286002606 dimer interface [polypeptide binding]; other site 375286002607 phosphorylation site [posttranslational modification] 375286002608 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286002609 ATP binding site [chemical binding]; other site 375286002610 Mg2+ binding site [ion binding]; other site 375286002611 G-X-G motif; other site 375286002612 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 375286002613 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286002614 active site 375286002615 phosphorylation site [posttranslational modification] 375286002616 intermolecular recognition site; other site 375286002617 dimerization interface [polypeptide binding]; other site 375286002618 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 375286002619 DNA binding site [nucleotide binding] 375286002620 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 375286002621 Multicopper oxidase; Region: Cu-oxidase; pfam00394 375286002622 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 375286002623 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 375286002624 CopC domain; Region: CopC; pfam04234 375286002625 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 375286002626 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 375286002627 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 375286002628 putative active site [active] 375286002629 putative metal binding site [ion binding]; other site 375286002630 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 375286002631 active site 375286002632 metal binding site [ion binding]; metal-binding site 375286002633 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 375286002634 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 375286002635 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 375286002636 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 375286002637 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 375286002638 putative active site [active] 375286002639 putative NTP binding site [chemical binding]; other site 375286002640 putative nucleic acid binding site [nucleotide binding]; other site 375286002641 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 375286002642 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 375286002643 motif II; other site 375286002644 TniQ; Region: TniQ; pfam06527 375286002645 Bacterial TniB protein; Region: TniB; pfam05621 375286002646 AAA domain; Region: AAA_22; pfam13401 375286002647 Integrase core domain; Region: rve; pfam00665 375286002648 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 375286002649 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 375286002650 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 375286002651 Walker A motif; other site 375286002652 ATP binding site [chemical binding]; other site 375286002653 Walker B motif; other site 375286002654 arginine finger; other site 375286002655 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 375286002656 active site 375286002657 catalytic triad [active] 375286002658 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 375286002659 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286002660 dimer interface [polypeptide binding]; other site 375286002661 conserved gate region; other site 375286002662 putative PBP binding loops; other site 375286002663 ABC-ATPase subunit interface; other site 375286002664 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286002665 dimer interface [polypeptide binding]; other site 375286002666 conserved gate region; other site 375286002667 putative PBP binding loops; other site 375286002668 ABC-ATPase subunit interface; other site 375286002669 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 375286002670 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 375286002671 Walker A/P-loop; other site 375286002672 ATP binding site [chemical binding]; other site 375286002673 Q-loop/lid; other site 375286002674 ABC transporter signature motif; other site 375286002675 Walker B; other site 375286002676 D-loop; other site 375286002677 H-loop/switch region; other site 375286002678 TOBE-like domain; Region: TOBE_3; pfam12857 375286002679 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 375286002680 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286002681 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 375286002682 substrate binding site [chemical binding]; other site 375286002683 dimerization interface [polypeptide binding]; other site 375286002684 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 375286002685 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 375286002686 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 375286002687 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 375286002688 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 375286002689 Cupin domain; Region: Cupin_2; pfam07883 375286002690 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 375286002691 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 375286002692 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 375286002693 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286002694 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 375286002695 dimerization interface [polypeptide binding]; other site 375286002696 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 375286002697 Peptidase family M48; Region: Peptidase_M48; cl12018 375286002698 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 375286002699 trimer interface [polypeptide binding]; other site 375286002700 active site 375286002701 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 375286002702 Flavoprotein; Region: Flavoprotein; pfam02441 375286002703 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 375286002704 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 375286002705 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 375286002706 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 375286002707 active site 375286002708 HIGH motif; other site 375286002709 nucleotide binding site [chemical binding]; other site 375286002710 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 375286002711 active site 375286002712 KMSKS motif; other site 375286002713 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 375286002714 tRNA binding surface [nucleotide binding]; other site 375286002715 anticodon binding site; other site 375286002716 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 375286002717 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 375286002718 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 375286002719 active site 375286002720 Riboflavin kinase; Region: Flavokinase; smart00904 375286002721 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 375286002722 RNA methyltransferase, RsmE family; Region: TIGR00046 375286002723 transketolase; Reviewed; Region: PRK12753 375286002724 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 375286002725 TPP-binding site [chemical binding]; other site 375286002726 dimer interface [polypeptide binding]; other site 375286002727 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 375286002728 PYR/PP interface [polypeptide binding]; other site 375286002729 dimer interface [polypeptide binding]; other site 375286002730 TPP binding site [chemical binding]; other site 375286002731 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 375286002732 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 375286002733 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 375286002734 Coenzyme A binding pocket [chemical binding]; other site 375286002735 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 375286002736 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 375286002737 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 375286002738 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 375286002739 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 375286002740 metal binding triad; other site 375286002741 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 375286002742 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 375286002743 metal binding triad; other site 375286002744 TIGR02099 family protein; Region: TIGR02099 375286002745 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 375286002746 nitrilase; Region: PLN02798 375286002747 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 375286002748 putative active site [active] 375286002749 catalytic triad [active] 375286002750 dimer interface [polypeptide binding]; other site 375286002751 protease TldD; Provisional; Region: tldD; PRK10735 375286002752 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 375286002753 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 375286002754 Predicted aspartyl protease [General function prediction only]; Region: COG3577 375286002755 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 375286002756 catalytic motif [active] 375286002757 Catalytic residue [active] 375286002758 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 375286002759 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 375286002760 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 375286002761 FAD binding domain; Region: FAD_binding_4; pfam01565 375286002762 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 375286002763 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 375286002764 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 375286002765 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 375286002766 active site 375286002767 Zn binding site [ion binding]; other site 375286002768 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 375286002769 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 375286002770 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 375286002771 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 375286002772 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 375286002773 active site 375286002774 HIGH motif; other site 375286002775 dimer interface [polypeptide binding]; other site 375286002776 KMSKS motif; other site 375286002777 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 375286002778 argininosuccinate synthase; Validated; Region: PRK05370 375286002779 ornithine carbamoyltransferase; Provisional; Region: PRK00779 375286002780 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 375286002781 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 375286002782 GTPase RsgA; Reviewed; Region: PRK00098 375286002783 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 375286002784 RNA binding site [nucleotide binding]; other site 375286002785 homodimer interface [polypeptide binding]; other site 375286002786 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 375286002787 GTPase/Zn-binding domain interface [polypeptide binding]; other site 375286002788 GTP/Mg2+ binding site [chemical binding]; other site 375286002789 G4 box; other site 375286002790 G5 box; other site 375286002791 G1 box; other site 375286002792 Switch I region; other site 375286002793 G2 box; other site 375286002794 G3 box; other site 375286002795 Switch II region; other site 375286002796 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 375286002797 aromatic arch; other site 375286002798 DCoH dimer interaction site [polypeptide binding]; other site 375286002799 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 375286002800 DCoH tetramer interaction site [polypeptide binding]; other site 375286002801 substrate binding site [chemical binding]; other site 375286002802 Peptidase family M48; Region: Peptidase_M48; pfam01435 375286002803 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 375286002804 catalytic site [active] 375286002805 putative active site [active] 375286002806 putative substrate binding site [chemical binding]; other site 375286002807 dimer interface [polypeptide binding]; other site 375286002808 hypothetical protein; Provisional; Region: PRK10396 375286002809 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 375286002810 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 375286002811 serine/threonine protein kinase; Provisional; Region: PRK11768 375286002812 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 375286002813 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286002814 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286002815 metal binding site [ion binding]; metal-binding site 375286002816 active site 375286002817 I-site; other site 375286002818 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 375286002819 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 375286002820 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286002821 active site 375286002822 phosphorylation site [posttranslational modification] 375286002823 intermolecular recognition site; other site 375286002824 dimerization interface [polypeptide binding]; other site 375286002825 Response regulator receiver domain; Region: Response_reg; pfam00072 375286002826 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286002827 active site 375286002828 phosphorylation site [posttranslational modification] 375286002829 intermolecular recognition site; other site 375286002830 dimerization interface [polypeptide binding]; other site 375286002831 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 375286002832 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 375286002833 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 375286002834 putative heme binding pocket [chemical binding]; other site 375286002835 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 375286002836 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 375286002837 AAA ATPase domain; Region: AAA_16; pfam13191 375286002838 Predicted ATPase [General function prediction only]; Region: COG3899 375286002839 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 375286002840 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 375286002841 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 375286002842 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 375286002843 dimer interface [polypeptide binding]; other site 375286002844 phosphorylation site [posttranslational modification] 375286002845 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286002846 ATP binding site [chemical binding]; other site 375286002847 Mg2+ binding site [ion binding]; other site 375286002848 G-X-G motif; other site 375286002849 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 375286002850 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286002851 active site 375286002852 phosphorylation site [posttranslational modification] 375286002853 intermolecular recognition site; other site 375286002854 dimerization interface [polypeptide binding]; other site 375286002855 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 375286002856 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 375286002857 dimer interface [polypeptide binding]; other site 375286002858 phosphorylation site [posttranslational modification] 375286002859 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286002860 ATP binding site [chemical binding]; other site 375286002861 Mg2+ binding site [ion binding]; other site 375286002862 G-X-G motif; other site 375286002863 Response regulator receiver domain; Region: Response_reg; pfam00072 375286002864 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286002865 active site 375286002866 phosphorylation site [posttranslational modification] 375286002867 intermolecular recognition site; other site 375286002868 dimerization interface [polypeptide binding]; other site 375286002869 TPR repeat; Region: TPR_11; pfam13414 375286002870 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 375286002871 binding surface 375286002872 TPR motif; other site 375286002873 SnoaL-like domain; Region: SnoaL_3; pfam13474 375286002874 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 375286002875 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 375286002876 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 375286002877 Ligand Binding Site [chemical binding]; other site 375286002878 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 375286002879 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 375286002880 putative substrate translocation pore; other site 375286002881 Putative transcription activator [Transcription]; Region: TenA; COG0819 375286002882 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 375286002883 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 375286002884 homodimer interface [polypeptide binding]; other site 375286002885 chemical substrate binding site [chemical binding]; other site 375286002886 oligomer interface [polypeptide binding]; other site 375286002887 metal binding site [ion binding]; metal-binding site 375286002888 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 375286002889 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 375286002890 glutamate racemase; Provisional; Region: PRK00865 375286002891 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 375286002892 Fumarase C-terminus; Region: Fumerase_C; pfam05683 375286002893 hypothetical protein; Provisional; Region: PRK05208 375286002894 acetyl-CoA synthetase; Provisional; Region: PRK00174 375286002895 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 375286002896 active site 375286002897 CoA binding site [chemical binding]; other site 375286002898 acyl-activating enzyme (AAE) consensus motif; other site 375286002899 AMP binding site [chemical binding]; other site 375286002900 acetate binding site [chemical binding]; other site 375286002901 integrase; Provisional; Region: PRK09692 375286002902 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 375286002903 active site 375286002904 Int/Topo IB signature motif; other site 375286002905 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 375286002906 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 375286002907 non-specific DNA binding site [nucleotide binding]; other site 375286002908 salt bridge; other site 375286002909 sequence-specific DNA binding site [nucleotide binding]; other site 375286002910 Cupin domain; Region: Cupin_2; cl17218 375286002911 DJ-1 family protein; Region: not_thiJ; TIGR01383 375286002912 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 375286002913 conserved cys residue [active] 375286002914 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 375286002915 metabolite-proton symporter; Region: 2A0106; TIGR00883 375286002916 putative substrate translocation pore; other site 375286002917 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 375286002918 homotrimer interaction site [polypeptide binding]; other site 375286002919 putative active site [active] 375286002920 MOSC domain; Region: MOSC; pfam03473 375286002921 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 375286002922 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 375286002923 FMN-binding pocket [chemical binding]; other site 375286002924 flavin binding motif; other site 375286002925 phosphate binding motif [ion binding]; other site 375286002926 beta-alpha-beta structure motif; other site 375286002927 NAD binding pocket [chemical binding]; other site 375286002928 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 375286002929 catalytic loop [active] 375286002930 iron binding site [ion binding]; other site 375286002931 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 375286002932 Predicted transcriptional regulators [Transcription]; Region: COG1733 375286002933 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 375286002934 putative DNA binding site [nucleotide binding]; other site 375286002935 putative Zn2+ binding site [ion binding]; other site 375286002936 Predicted transcriptional regulators [Transcription]; Region: COG1733 375286002937 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 375286002938 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 375286002939 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 375286002940 C-terminal domain interface [polypeptide binding]; other site 375286002941 GSH binding site (G-site) [chemical binding]; other site 375286002942 dimer interface [polypeptide binding]; other site 375286002943 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 375286002944 N-terminal domain interface [polypeptide binding]; other site 375286002945 dimer interface [polypeptide binding]; other site 375286002946 substrate binding pocket (H-site) [chemical binding]; other site 375286002947 Uncharacterized conserved protein [Function unknown]; Region: COG1262 375286002948 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 375286002949 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286002950 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286002951 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 375286002952 putative effector binding pocket; other site 375286002953 dimerization interface [polypeptide binding]; other site 375286002954 classical (c) SDRs; Region: SDR_c; cd05233 375286002955 short chain dehydrogenase; Provisional; Region: PRK06172 375286002956 NAD(P) binding site [chemical binding]; other site 375286002957 active site 375286002958 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375286002959 dimer interface [polypeptide binding]; other site 375286002960 putative CheW interface [polypeptide binding]; other site 375286002961 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 375286002962 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 375286002963 active site 375286002964 motif I; other site 375286002965 motif II; other site 375286002966 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 375286002967 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 375286002968 Na binding site [ion binding]; other site 375286002969 Protein of unknown function, DUF485; Region: DUF485; pfam04341 375286002970 PAS domain S-box; Region: sensory_box; TIGR00229 375286002971 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 375286002972 putative active site [active] 375286002973 heme pocket [chemical binding]; other site 375286002974 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 375286002975 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 375286002976 Walker A motif; other site 375286002977 ATP binding site [chemical binding]; other site 375286002978 Walker B motif; other site 375286002979 arginine finger; other site 375286002980 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 375286002981 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 375286002982 Zn2+ binding site [ion binding]; other site 375286002983 Mg2+ binding site [ion binding]; other site 375286002984 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 375286002985 RNA polymerase sigma factor; Provisional; Region: PRK12536 375286002986 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286002987 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 375286002988 DNA binding residues [nucleotide binding] 375286002989 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 375286002990 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 375286002991 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 375286002992 dimerization interface [polypeptide binding]; other site 375286002993 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375286002994 dimer interface [polypeptide binding]; other site 375286002995 putative CheW interface [polypeptide binding]; other site 375286002996 Chlorite dismutase; Region: Chlor_dismutase; cl01280 375286002997 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 375286002998 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 375286002999 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 375286003000 putative active site [active] 375286003001 heme pocket [chemical binding]; other site 375286003002 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 375286003003 putative active site [active] 375286003004 heme pocket [chemical binding]; other site 375286003005 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 375286003006 Histidine kinase; Region: HisKA_3; pfam07730 375286003007 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286003008 ATP binding site [chemical binding]; other site 375286003009 Mg2+ binding site [ion binding]; other site 375286003010 G-X-G motif; other site 375286003011 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 375286003012 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286003013 active site 375286003014 phosphorylation site [posttranslational modification] 375286003015 intermolecular recognition site; other site 375286003016 dimerization interface [polypeptide binding]; other site 375286003017 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 375286003018 DNA binding residues [nucleotide binding] 375286003019 dimerization interface [polypeptide binding]; other site 375286003020 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 375286003021 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 375286003022 dimerization interface [polypeptide binding]; other site 375286003023 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 375286003024 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375286003025 dimer interface [polypeptide binding]; other site 375286003026 putative CheW interface [polypeptide binding]; other site 375286003027 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286003028 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286003029 metal binding site [ion binding]; metal-binding site 375286003030 active site 375286003031 I-site; other site 375286003032 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 375286003033 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 375286003034 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 375286003035 Transcriptional activator [Transcription]; Region: ChrR; COG3806 375286003036 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 375286003037 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 375286003038 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 375286003039 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 375286003040 classical (c) SDRs; Region: SDR_c; cd05233 375286003041 NAD(P) binding site [chemical binding]; other site 375286003042 active site 375286003043 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 375286003044 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286003045 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 375286003046 dimerization interface [polypeptide binding]; other site 375286003047 substrate binding pocket [chemical binding]; other site 375286003048 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 375286003049 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 375286003050 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 375286003051 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 375286003052 dimer interface [polypeptide binding]; other site 375286003053 active site 375286003054 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 375286003055 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375286003056 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 375286003057 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 375286003058 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 375286003059 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 375286003060 transcriptional regulator; Provisional; Region: PRK10632 375286003061 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286003062 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 375286003063 putative effector binding pocket; other site 375286003064 putative dimerization interface [polypeptide binding]; other site 375286003065 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 375286003066 hypothetical protein; Provisional; Region: PRK05409 375286003067 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 375286003068 Predicted membrane protein [Function unknown]; Region: COG2259 375286003069 Outer membrane efflux protein; Region: OEP; pfam02321 375286003070 Outer membrane efflux protein; Region: OEP; pfam02321 375286003071 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 375286003072 HlyD family secretion protein; Region: HlyD_3; pfam13437 375286003073 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 375286003074 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 375286003075 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 375286003076 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 375286003077 PilZ domain; Region: PilZ; pfam07238 375286003078 Protein of unknown function, DUF417; Region: DUF417; cl01162 375286003079 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 375286003080 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 375286003081 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 375286003082 binding surface 375286003083 TPR motif; other site 375286003084 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 375286003085 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 375286003086 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 375286003087 catalytic residues [active] 375286003088 central insert; other site 375286003089 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 375286003090 CcmE; Region: CcmE; pfam03100 375286003091 Heme exporter protein D (CcmD); Region: CcmD; cl11475 375286003092 heme exporter protein CcmC; Region: ccmC; TIGR01191 375286003093 CcmB protein; Region: CcmB; cl17444 375286003094 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 375286003095 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375286003096 Walker A/P-loop; other site 375286003097 ATP binding site [chemical binding]; other site 375286003098 Q-loop/lid; other site 375286003099 ABC transporter signature motif; other site 375286003100 Walker B; other site 375286003101 D-loop; other site 375286003102 H-loop/switch region; other site 375286003103 methionine sulfoxide reductase A; Provisional; Region: PRK14054 375286003104 methionine sulfoxide reductase B; Provisional; Region: PRK00222 375286003105 SelR domain; Region: SelR; pfam01641 375286003106 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 375286003107 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 375286003108 putative NAD(P) binding site [chemical binding]; other site 375286003109 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 375286003110 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 375286003111 Methyltransferase domain; Region: Methyltransf_25; pfam13649 375286003112 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 375286003113 mercuric reductase; Validated; Region: PRK06370 375286003114 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 375286003115 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 375286003116 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 375286003117 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 375286003118 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 375286003119 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 375286003120 TrkA-N domain; Region: TrkA_N; pfam02254 375286003121 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 375286003122 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375286003123 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 375286003124 Cupin; Region: Cupin_6; pfam12852 375286003125 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 375286003126 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375286003127 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286003128 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286003129 metal binding site [ion binding]; metal-binding site 375286003130 active site 375286003131 I-site; other site 375286003132 putative transposase OrfB; Reviewed; Region: PHA02517 375286003133 HTH-like domain; Region: HTH_21; pfam13276 375286003134 Integrase core domain; Region: rve; pfam00665 375286003135 Integrase core domain; Region: rve_3; pfam13683 375286003136 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 375286003137 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 375286003138 GAF domain; Region: GAF; pfam01590 375286003139 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286003140 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286003141 metal binding site [ion binding]; metal-binding site 375286003142 active site 375286003143 I-site; other site 375286003144 Cupin; Region: Cupin_6; pfam12852 375286003145 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 375286003146 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375286003147 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 375286003148 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 375286003149 putative NAD(P) binding site [chemical binding]; other site 375286003150 glutathione reductase; Validated; Region: PRK06116 375286003151 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 375286003152 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 375286003153 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 375286003154 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 375286003155 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 375286003156 Coenzyme A binding pocket [chemical binding]; other site 375286003157 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 375286003158 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 375286003159 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 375286003160 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 375286003161 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 375286003162 C-terminal domain interface [polypeptide binding]; other site 375286003163 GSH binding site (G-site) [chemical binding]; other site 375286003164 dimer interface [polypeptide binding]; other site 375286003165 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 375286003166 dimer interface [polypeptide binding]; other site 375286003167 N-terminal domain interface [polypeptide binding]; other site 375286003168 Uncharacterized conserved protein [Function unknown]; Region: COG2128 375286003169 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 375286003170 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 375286003171 classical (c) SDRs; Region: SDR_c; cd05233 375286003172 NAD(P) binding site [chemical binding]; other site 375286003173 active site 375286003174 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 375286003175 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 375286003176 Cupin; Region: Cupin_6; pfam12852 375286003177 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 375286003178 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375286003179 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375286003180 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 375286003181 dimer interface [polypeptide binding]; other site 375286003182 FMN binding site [chemical binding]; other site 375286003183 Cupin domain; Region: Cupin_2; pfam07883 375286003184 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 375286003185 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 375286003186 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375286003187 DNA-binding site [nucleotide binding]; DNA binding site 375286003188 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 375286003189 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286003190 homodimer interface [polypeptide binding]; other site 375286003191 catalytic residue [active] 375286003192 Uncharacterized conserved protein [Function unknown]; Region: COG3189 375286003193 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 375286003194 putative uracil binding site [chemical binding]; other site 375286003195 putative active site [active] 375286003196 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 375286003197 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 375286003198 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 375286003199 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 375286003200 MPN+ (JAMM) motif; other site 375286003201 Zinc-binding site [ion binding]; other site 375286003202 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 375286003203 Bacterial SH3 domain; Region: SH3_3; pfam08239 375286003204 Zinc finger-containing protein; Region: zf-C4H2; pfam10146 375286003205 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 375286003206 non-specific DNA binding site [nucleotide binding]; other site 375286003207 salt bridge; other site 375286003208 sequence-specific DNA binding site [nucleotide binding]; other site 375286003209 phage/plasmid-like protein TIGR03299; Region: LGT_TIGR03299 375286003210 Domain of unknown function (DUF955); Region: DUF955; pfam06114 375286003211 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 375286003212 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 375286003213 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 375286003214 cyclase homology domain; Region: CHD; cd07302 375286003215 nucleotidyl binding site; other site 375286003216 metal binding site [ion binding]; metal-binding site 375286003217 dimer interface [polypeptide binding]; other site 375286003218 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 375286003219 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 375286003220 ligand binding site [chemical binding]; other site 375286003221 flexible hinge region; other site 375286003222 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; cl17861 375286003223 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 375286003224 cyclase homology domain; Region: CHD; cd07302 375286003225 nucleotidyl binding site; other site 375286003226 metal binding site [ion binding]; metal-binding site 375286003227 dimer interface [polypeptide binding]; other site 375286003228 Bacterial SH3 domain; Region: SH3_3; pfam08239 375286003229 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 375286003230 active site 375286003231 metal binding site [ion binding]; metal-binding site 375286003232 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 375286003233 AAA domain; Region: AAA_23; pfam13476 375286003234 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375286003235 ABC transporter signature motif; other site 375286003236 Walker B; other site 375286003237 D-loop; other site 375286003238 H-loop/switch region; other site 375286003239 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 375286003240 putative metal binding site [ion binding]; other site 375286003241 Uncharacterized conserved protein [Function unknown]; Region: COG1432 375286003242 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 375286003243 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 375286003244 His-Xaa-Ser system radical SAM maturase HxsB; Region: rSAM_paired_1; TIGR03978 375286003245 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 375286003246 FeS/SAM binding site; other site 375286003247 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 375286003248 His-Xaa-Ser system radical SAM maturase HxsC; Region: rSAM_pair_HxsC; TIGR03977 375286003249 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 375286003250 FeS/SAM binding site; other site 375286003251 His-Xaa-Ser repeat protein HxsA; Region: His_Ser_Rich; TIGR03979 375286003252 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 375286003253 Isochorismatase family; Region: Isochorismatase; pfam00857 375286003254 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 375286003255 catalytic triad [active] 375286003256 conserved cis-peptide bond; other site 375286003257 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 375286003258 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375286003259 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 375286003260 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375286003261 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 375286003262 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 375286003263 dimer interface [polypeptide binding]; other site 375286003264 active site 375286003265 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 375286003266 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 375286003267 substrate binding pocket [chemical binding]; other site 375286003268 membrane-bound complex binding site; other site 375286003269 hinge residues; other site 375286003270 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 375286003271 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 375286003272 active site 375286003273 dimer interface [polypeptide binding]; other site 375286003274 non-prolyl cis peptide bond; other site 375286003275 insertion regions; other site 375286003276 MarR family; Region: MarR_2; pfam12802 375286003277 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 375286003278 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 375286003279 HlyD family secretion protein; Region: HlyD_3; pfam13437 375286003280 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 375286003281 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 375286003282 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 375286003283 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 375286003284 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 375286003285 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 375286003286 putative active site [active] 375286003287 putative metal-binding site [ion binding]; other site 375286003288 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 375286003289 Part of AAA domain; Region: AAA_19; pfam13245 375286003290 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 375286003291 active site 375286003292 DnaJ central domain; Region: DnaJ_CXXCXGXG; pfam00684 375286003293 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 375286003294 Zn binding sites [ion binding]; other site 375286003295 DnaJ central domain; Region: DnaJ_CXXCXGXG; pfam00684 375286003296 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 375286003297 Zn binding sites [ion binding]; other site 375286003298 DnaJ central domain; Region: DnaJ_CXXCXGXG; pfam00684 375286003299 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 375286003300 Zn binding sites [ion binding]; other site 375286003301 SIR2-like domain; Region: SIR2_2; pfam13289 375286003302 Predicted transcriptional regulator [Transcription]; Region: COG1959 375286003303 Transcriptional regulator; Region: Rrf2; pfam02082 375286003304 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 375286003305 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 375286003306 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 375286003307 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375286003308 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 375286003309 Methyltransferase domain; Region: Methyltransf_24; pfam13578 375286003310 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 375286003311 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375286003312 NAD(P) binding site [chemical binding]; other site 375286003313 active site 375286003314 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 375286003315 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 375286003316 active site 375286003317 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 375286003318 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 375286003319 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 375286003320 trimer interface [polypeptide binding]; other site 375286003321 eyelet of channel; other site 375286003322 benzoate transport; Region: 2A0115; TIGR00895 375286003323 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 375286003324 putative substrate translocation pore; other site 375286003325 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 375286003326 CsbD-like; Region: CsbD; cl17424 375286003327 Cupin domain; Region: Cupin_2; pfam07883 375286003328 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 375286003329 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375286003330 Protein of unknown function (DUF342); Region: DUF342; pfam03961 375286003331 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 375286003332 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 375286003333 putative substrate translocation pore; other site 375286003334 Helix-turn-helix domain; Region: HTH_18; pfam12833 375286003335 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375286003336 Methyltransferase domain; Region: Methyltransf_31; pfam13847 375286003337 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 375286003338 S-adenosylmethionine binding site [chemical binding]; other site 375286003339 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 375286003340 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375286003341 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 375286003342 Paraquat-inducible protein A; Region: PqiA; pfam04403 375286003343 Paraquat-inducible protein A; Region: PqiA; pfam04403 375286003344 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 375286003345 mce related protein; Region: MCE; pfam02470 375286003346 mce related protein; Region: MCE; pfam02470 375286003347 mce related protein; Region: MCE; pfam02470 375286003348 Protein of unknown function (DUF330); Region: DUF330; pfam03886 375286003349 transcriptional activator TtdR; Provisional; Region: PRK09801 375286003350 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286003351 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 375286003352 putative effector binding pocket; other site 375286003353 putative dimerization interface [polypeptide binding]; other site 375286003354 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 375286003355 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 375286003356 putative active site pocket [active] 375286003357 metal binding site [ion binding]; metal-binding site 375286003358 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 375286003359 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286003360 active site 375286003361 phosphorylation site [posttranslational modification] 375286003362 intermolecular recognition site; other site 375286003363 dimerization interface [polypeptide binding]; other site 375286003364 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 375286003365 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 375286003366 Autotransporter beta-domain; Region: Autotransporter; smart00869 375286003367 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 375286003368 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 375286003369 FAD binding pocket [chemical binding]; other site 375286003370 FAD binding motif [chemical binding]; other site 375286003371 phosphate binding motif [ion binding]; other site 375286003372 beta-alpha-beta structure motif; other site 375286003373 NAD binding pocket [chemical binding]; other site 375286003374 macrolide transporter subunit MacA; Provisional; Region: PRK11578 375286003375 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 375286003376 HlyD family secretion protein; Region: HlyD_3; pfam13437 375286003377 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 375286003378 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 375286003379 Walker A/P-loop; other site 375286003380 ATP binding site [chemical binding]; other site 375286003381 Q-loop/lid; other site 375286003382 ABC transporter signature motif; other site 375286003383 Walker B; other site 375286003384 D-loop; other site 375286003385 H-loop/switch region; other site 375286003386 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 375286003387 FtsX-like permease family; Region: FtsX; pfam02687 375286003388 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 375286003389 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 375286003390 Na binding site [ion binding]; other site 375286003391 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 375286003392 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 375286003393 substrate binding site [chemical binding]; other site 375286003394 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 375286003395 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 375286003396 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 375286003397 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 375286003398 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 375286003399 G1 box; other site 375286003400 putative GEF interaction site [polypeptide binding]; other site 375286003401 GTP/Mg2+ binding site [chemical binding]; other site 375286003402 Switch I region; other site 375286003403 G2 box; other site 375286003404 G3 box; other site 375286003405 Switch II region; other site 375286003406 G4 box; other site 375286003407 G5 box; other site 375286003408 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 375286003409 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 375286003410 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 375286003411 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 375286003412 active site residue [active] 375286003413 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 375286003414 glutamine synthetase; Provisional; Region: glnA; PRK09469 375286003415 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 375286003416 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 375286003417 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 375286003418 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 375286003419 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 375286003420 putative active site [active] 375286003421 heme pocket [chemical binding]; other site 375286003422 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 375286003423 dimer interface [polypeptide binding]; other site 375286003424 phosphorylation site [posttranslational modification] 375286003425 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286003426 ATP binding site [chemical binding]; other site 375286003427 Mg2+ binding site [ion binding]; other site 375286003428 G-X-G motif; other site 375286003429 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 375286003430 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286003431 active site 375286003432 phosphorylation site [posttranslational modification] 375286003433 intermolecular recognition site; other site 375286003434 dimerization interface [polypeptide binding]; other site 375286003435 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 375286003436 Walker A motif; other site 375286003437 ATP binding site [chemical binding]; other site 375286003438 Walker B motif; other site 375286003439 arginine finger; other site 375286003440 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 375286003441 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 375286003442 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 375286003443 TrkA-C domain; Region: TrkA_C; pfam02080 375286003444 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 375286003445 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 375286003446 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 375286003447 TrkA-C domain; Region: TrkA_C; pfam02080 375286003448 TrkA-C domain; Region: TrkA_C; pfam02080 375286003449 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 375286003450 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 375286003451 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 375286003452 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286003453 homodimer interface [polypeptide binding]; other site 375286003454 catalytic residue [active] 375286003455 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 375286003456 putative binding surface; other site 375286003457 active site 375286003458 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 375286003459 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 375286003460 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286003461 ATP binding site [chemical binding]; other site 375286003462 Mg2+ binding site [ion binding]; other site 375286003463 G-X-G motif; other site 375286003464 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 375286003465 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 375286003466 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 375286003467 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 375286003468 putative dimer interface [polypeptide binding]; other site 375286003469 active site pocket [active] 375286003470 putative cataytic base [active] 375286003471 cobalamin synthase; Reviewed; Region: cobS; PRK00235 375286003472 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 375286003473 catalytic core [active] 375286003474 serine/threonine protein kinase; Provisional; Region: PRK14879 375286003475 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 375286003476 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 375286003477 N-terminal plug; other site 375286003478 ligand-binding site [chemical binding]; other site 375286003479 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 375286003480 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 375286003481 N-terminal plug; other site 375286003482 ligand-binding site [chemical binding]; other site 375286003483 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 375286003484 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 375286003485 ABC-ATPase subunit interface; other site 375286003486 dimer interface [polypeptide binding]; other site 375286003487 putative PBP binding regions; other site 375286003488 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 375286003489 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 375286003490 Walker A/P-loop; other site 375286003491 ATP binding site [chemical binding]; other site 375286003492 Q-loop/lid; other site 375286003493 ABC transporter signature motif; other site 375286003494 Walker B; other site 375286003495 D-loop; other site 375286003496 H-loop/switch region; other site 375286003497 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 375286003498 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 375286003499 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 375286003500 Walker A motif; other site 375286003501 homodimer interface [polypeptide binding]; other site 375286003502 ATP binding site [chemical binding]; other site 375286003503 hydroxycobalamin binding site [chemical binding]; other site 375286003504 Walker B motif; other site 375286003505 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 375286003506 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 375286003507 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 375286003508 catalytic triad [active] 375286003509 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 375286003510 homotrimer interface [polypeptide binding]; other site 375286003511 Walker A motif; other site 375286003512 GTP binding site [chemical binding]; other site 375286003513 Walker B motif; other site 375286003514 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 375286003515 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 375286003516 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 375286003517 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286003518 homodimer interface [polypeptide binding]; other site 375286003519 catalytic residue [active] 375286003520 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 375286003521 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 375286003522 cobalamin binding residues [chemical binding]; other site 375286003523 putative BtuC binding residues; other site 375286003524 dimer interface [polypeptide binding]; other site 375286003525 cobyric acid synthase; Provisional; Region: PRK00784 375286003526 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 375286003527 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 375286003528 catalytic triad [active] 375286003529 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 375286003530 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 375286003531 P-loop; other site 375286003532 Magnesium ion binding site [ion binding]; other site 375286003533 DinB family; Region: DinB; cl17821 375286003534 DinB superfamily; Region: DinB_2; pfam12867 375286003535 pantoate--beta-alanine ligase; Region: panC; TIGR00018 375286003536 Pantoate-beta-alanine ligase; Region: PanC; cd00560 375286003537 active site 375286003538 ATP-binding site [chemical binding]; other site 375286003539 pantoate-binding site; other site 375286003540 HXXH motif; other site 375286003541 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 375286003542 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 375286003543 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 375286003544 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 375286003545 putative transporter; Provisional; Region: PRK11660 375286003546 Sulfate transporter family; Region: Sulfate_transp; pfam00916 375286003547 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 375286003548 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 375286003549 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375286003550 NAD(P) binding site [chemical binding]; other site 375286003551 active site 375286003552 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375286003553 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 375286003554 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 375286003555 active site 375286003556 HIGH motif; other site 375286003557 KMSKS motif; other site 375286003558 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 375286003559 anticodon binding site; other site 375286003560 tRNA binding surface [nucleotide binding]; other site 375286003561 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 375286003562 dimer interface [polypeptide binding]; other site 375286003563 putative tRNA-binding site [nucleotide binding]; other site 375286003564 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 375286003565 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 375286003566 HIGH motif; other site 375286003567 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 375286003568 active site 375286003569 KMSKS motif; other site 375286003570 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 375286003571 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 375286003572 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 375286003573 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 375286003574 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 375286003575 CoA binding domain; Region: CoA_binding; pfam02629 375286003576 CoA-ligase; Region: Ligase_CoA; pfam00549 375286003577 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 375286003578 carbamate kinase; Reviewed; Region: PRK12686 375286003579 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 375286003580 putative substrate binding site [chemical binding]; other site 375286003581 nucleotide binding site [chemical binding]; other site 375286003582 nucleotide binding site [chemical binding]; other site 375286003583 homodimer interface [polypeptide binding]; other site 375286003584 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 375286003585 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286003586 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 375286003587 dimerization interface [polypeptide binding]; other site 375286003588 MarR family; Region: MarR_2; cl17246 375286003589 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 375286003590 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 375286003591 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 375286003592 HlyD family secretion protein; Region: HlyD_3; pfam13437 375286003593 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 375286003594 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 375286003595 putative substrate translocation pore; other site 375286003596 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 375286003597 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 375286003598 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 375286003599 elongation factor P; Validated; Region: PRK00529 375286003600 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 375286003601 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 375286003602 RNA binding site [nucleotide binding]; other site 375286003603 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 375286003604 RNA binding site [nucleotide binding]; other site 375286003605 Peptidase family M48; Region: Peptidase_M48; cl12018 375286003606 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 375286003607 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 375286003608 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 375286003609 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 375286003610 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 375286003611 putative active site [active] 375286003612 putative substrate binding site [chemical binding]; other site 375286003613 putative cosubstrate binding site; other site 375286003614 catalytic site [active] 375286003615 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 375286003616 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 375286003617 MPT binding site; other site 375286003618 trimer interface [polypeptide binding]; other site 375286003619 hypothetical protein; Provisional; Region: PRK05255 375286003620 peptidase PmbA; Provisional; Region: PRK11040 375286003621 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 375286003622 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 375286003623 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 375286003624 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 375286003625 argininosuccinate lyase; Provisional; Region: PRK00855 375286003626 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 375286003627 active sites [active] 375286003628 tetramer interface [polypeptide binding]; other site 375286003629 Histidine kinase; Region: His_kinase; pfam06580 375286003630 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 375286003631 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286003632 active site 375286003633 phosphorylation site [posttranslational modification] 375286003634 intermolecular recognition site; other site 375286003635 dimerization interface [polypeptide binding]; other site 375286003636 LytTr DNA-binding domain; Region: LytTR; smart00850 375286003637 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 375286003638 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 375286003639 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 375286003640 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 375286003641 domain interfaces; other site 375286003642 active site 375286003643 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 375286003644 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 375286003645 active site 375286003646 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 375286003647 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 375286003648 HemY protein N-terminus; Region: HemY_N; pfam07219 375286003649 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 375286003650 dimer interface [polypeptide binding]; other site 375286003651 substrate binding site [chemical binding]; other site 375286003652 metal binding sites [ion binding]; metal-binding site 375286003653 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 375286003654 EamA-like transporter family; Region: EamA; pfam00892 375286003655 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 375286003656 Catalytic domain of Protein Kinases; Region: PKc; cd00180 375286003657 active site 375286003658 ATP binding site [chemical binding]; other site 375286003659 substrate binding site [chemical binding]; other site 375286003660 activation loop (A-loop); other site 375286003661 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 375286003662 Protein of unknown function, DUF482; Region: DUF482; pfam04339 375286003663 NAD synthetase; Provisional; Region: PRK13981 375286003664 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 375286003665 multimer interface [polypeptide binding]; other site 375286003666 active site 375286003667 catalytic triad [active] 375286003668 protein interface 1 [polypeptide binding]; other site 375286003669 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 375286003670 homodimer interface [polypeptide binding]; other site 375286003671 NAD binding pocket [chemical binding]; other site 375286003672 ATP binding pocket [chemical binding]; other site 375286003673 Mg binding site [ion binding]; other site 375286003674 active-site loop [active] 375286003675 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 375286003676 Nitrogen regulatory protein P-II; Region: P-II; smart00938 375286003677 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 375286003678 Smr domain; Region: Smr; pfam01713 375286003679 thioredoxin reductase; Provisional; Region: PRK10262 375286003680 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 375286003681 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 375286003682 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 375286003683 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 375286003684 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 375286003685 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 375286003686 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 375286003687 recombination factor protein RarA; Reviewed; Region: PRK13342 375286003688 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 375286003689 Walker A motif; other site 375286003690 ATP binding site [chemical binding]; other site 375286003691 Walker B motif; other site 375286003692 arginine finger; other site 375286003693 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 375286003694 seryl-tRNA synthetase; Provisional; Region: PRK05431 375286003695 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 375286003696 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 375286003697 dimer interface [polypeptide binding]; other site 375286003698 active site 375286003699 motif 1; other site 375286003700 motif 2; other site 375286003701 motif 3; other site 375286003702 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 375286003703 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 375286003704 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286003705 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286003706 metal binding site [ion binding]; metal-binding site 375286003707 active site 375286003708 I-site; other site 375286003709 Secretin and TonB N terminus short domain; Region: STN; smart00965 375286003710 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 375286003711 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 375286003712 N-terminal plug; other site 375286003713 ligand-binding site [chemical binding]; other site 375286003714 fec operon regulator FecR; Reviewed; Region: PRK09774 375286003715 FecR protein; Region: FecR; pfam04773 375286003716 RNA polymerase sigma factor; Provisional; Region: PRK12528 375286003717 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286003718 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 375286003719 DNA binding residues [nucleotide binding] 375286003720 Predicted membrane protein [Function unknown]; Region: COG3174 375286003721 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 375286003722 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 375286003723 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 375286003724 ligand binding site [chemical binding]; other site 375286003725 flexible hinge region; other site 375286003726 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 375286003727 non-specific DNA interactions [nucleotide binding]; other site 375286003728 DNA binding site [nucleotide binding] 375286003729 sequence specific DNA binding site [nucleotide binding]; other site 375286003730 putative cAMP binding site [chemical binding]; other site 375286003731 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 375286003732 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 375286003733 ligand binding site [chemical binding]; other site 375286003734 BON domain; Region: BON; pfam04972 375286003735 glutamate--cysteine ligase; Provisional; Region: PRK02107 375286003736 hypothetical protein; Provisional; Region: PRK01254 375286003737 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 375286003738 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 375286003739 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 375286003740 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 375286003741 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 375286003742 RNA binding surface [nucleotide binding]; other site 375286003743 Pseudouridine synthase, a subgroup of the RsuA family; Region: PSSA_1; cd02555 375286003744 active site 375286003745 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 375286003746 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 375286003747 dimerization interface [polypeptide binding]; other site 375286003748 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 375286003749 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375286003750 dimer interface [polypeptide binding]; other site 375286003751 putative CheW interface [polypeptide binding]; other site 375286003752 S-formylglutathione hydrolase; Region: PLN02442 375286003753 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 375286003754 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 375286003755 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 375286003756 substrate binding site [chemical binding]; other site 375286003757 catalytic Zn binding site [ion binding]; other site 375286003758 NAD binding site [chemical binding]; other site 375286003759 structural Zn binding site [ion binding]; other site 375286003760 dimer interface [polypeptide binding]; other site 375286003761 cell division topological specificity factor MinE; Provisional; Region: PRK13989 375286003762 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 375286003763 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 375286003764 Switch I; other site 375286003765 Switch II; other site 375286003766 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 375286003767 septum site-determining protein MinC; Region: minC; TIGR01222 375286003768 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 375286003769 recombination associated protein; Reviewed; Region: rdgC; PRK00321 375286003770 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 375286003771 oxidative damage protection protein; Provisional; Region: PRK05408 375286003772 N-acetylglutamate synthase; Validated; Region: PRK05279 375286003773 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 375286003774 putative feedback inhibition sensing region; other site 375286003775 putative nucleotide binding site [chemical binding]; other site 375286003776 putative substrate binding site [chemical binding]; other site 375286003777 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 375286003778 Coenzyme A binding pocket [chemical binding]; other site 375286003779 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 375286003780 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 375286003781 ATP binding site [chemical binding]; other site 375286003782 putative Mg++ binding site [ion binding]; other site 375286003783 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 375286003784 nucleotide binding region [chemical binding]; other site 375286003785 ATP-binding site [chemical binding]; other site 375286003786 Helicase associated domain (HA2); Region: HA2; pfam04408 375286003787 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 375286003788 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 375286003789 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 375286003790 trimer interface [polypeptide binding]; other site 375286003791 active site 375286003792 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 375286003793 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286003794 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 375286003795 putative dimerization interface [polypeptide binding]; other site 375286003796 putative substrate binding pocket [chemical binding]; other site 375286003797 Chromate transporter; Region: Chromate_transp; pfam02417 375286003798 Chromate transporter; Region: Chromate_transp; pfam02417 375286003799 Periplasmic lysozyme inhibitor, I-type (PliI) and similar proteins; Region: PliI_like; cd09632 375286003800 dimer interface [polypeptide binding]; other site 375286003801 putative inhibitory loop; other site 375286003802 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 375286003803 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 375286003804 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 375286003805 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 375286003806 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 375286003807 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 375286003808 catalytic residue [active] 375286003809 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 375286003810 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 375286003811 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 375286003812 folate binding site [chemical binding]; other site 375286003813 NADP+ binding site [chemical binding]; other site 375286003814 thymidylate synthase; Provisional; Region: thyA; PRK13821 375286003815 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 375286003816 dimerization interface [polypeptide binding]; other site 375286003817 active site 375286003818 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 375286003819 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 375286003820 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375286003821 Walker A/P-loop; other site 375286003822 ATP binding site [chemical binding]; other site 375286003823 Q-loop/lid; other site 375286003824 ABC transporter signature motif; other site 375286003825 Walker B; other site 375286003826 D-loop; other site 375286003827 H-loop/switch region; other site 375286003828 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 375286003829 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 375286003830 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 375286003831 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 375286003832 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 375286003833 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 375286003834 2-isopropylmalate synthase; Validated; Region: PRK03739 375286003835 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 375286003836 active site 375286003837 catalytic residues [active] 375286003838 metal binding site [ion binding]; metal-binding site 375286003839 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 375286003840 selenophosphate synthetase; Provisional; Region: PRK00943 375286003841 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 375286003842 dimerization interface [polypeptide binding]; other site 375286003843 putative ATP binding site [chemical binding]; other site 375286003844 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 375286003845 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 375286003846 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 375286003847 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 375286003848 ATP binding site [chemical binding]; other site 375286003849 Mg++ binding site [ion binding]; other site 375286003850 motif III; other site 375286003851 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 375286003852 nucleotide binding region [chemical binding]; other site 375286003853 ATP-binding site [chemical binding]; other site 375286003854 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 375286003855 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 375286003856 NAD binding site [chemical binding]; other site 375286003857 homotetramer interface [polypeptide binding]; other site 375286003858 homodimer interface [polypeptide binding]; other site 375286003859 substrate binding site [chemical binding]; other site 375286003860 active site 375286003861 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 375286003862 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 375286003863 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 375286003864 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286003865 dimer interface [polypeptide binding]; other site 375286003866 conserved gate region; other site 375286003867 putative PBP binding loops; other site 375286003868 ABC-ATPase subunit interface; other site 375286003869 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 375286003870 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286003871 dimer interface [polypeptide binding]; other site 375286003872 conserved gate region; other site 375286003873 putative PBP binding loops; other site 375286003874 ABC-ATPase subunit interface; other site 375286003875 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 375286003876 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 375286003877 Walker A/P-loop; other site 375286003878 ATP binding site [chemical binding]; other site 375286003879 Q-loop/lid; other site 375286003880 ABC transporter signature motif; other site 375286003881 Walker B; other site 375286003882 D-loop; other site 375286003883 H-loop/switch region; other site 375286003884 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 375286003885 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 375286003886 Walker A/P-loop; other site 375286003887 ATP binding site [chemical binding]; other site 375286003888 Q-loop/lid; other site 375286003889 ABC transporter signature motif; other site 375286003890 Walker B; other site 375286003891 D-loop; other site 375286003892 H-loop/switch region; other site 375286003893 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 375286003894 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 375286003895 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 375286003896 N-acetyl-D-glucosamine binding site [chemical binding]; other site 375286003897 catalytic residue [active] 375286003898 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 375286003899 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 375286003900 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 375286003901 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 375286003902 RNA/DNA hybrid binding site [nucleotide binding]; other site 375286003903 active site 375286003904 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 375286003905 active site 375286003906 catalytic site [active] 375286003907 substrate binding site [chemical binding]; other site 375286003908 RNA polymerase sigma factor; Provisional; Region: PRK12528 375286003909 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286003910 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 375286003911 DNA binding residues [nucleotide binding] 375286003912 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 375286003913 FecR protein; Region: FecR; pfam04773 375286003914 Secretin and TonB N terminus short domain; Region: STN; smart00965 375286003915 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 375286003916 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 375286003917 N-terminal plug; other site 375286003918 ligand-binding site [chemical binding]; other site 375286003919 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 375286003920 dimer interface [polypeptide binding]; other site 375286003921 substrate binding site [chemical binding]; other site 375286003922 ATP binding site [chemical binding]; other site 375286003923 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286003924 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286003925 metal binding site [ion binding]; metal-binding site 375286003926 active site 375286003927 I-site; other site 375286003928 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 375286003929 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 375286003930 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 375286003931 S-adenosylmethionine binding site [chemical binding]; other site 375286003932 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286003933 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286003934 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 375286003935 putative dimerization interface [polypeptide binding]; other site 375286003936 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 375286003937 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 375286003938 FMN-binding pocket [chemical binding]; other site 375286003939 flavin binding motif; other site 375286003940 phosphate binding motif [ion binding]; other site 375286003941 beta-alpha-beta structure motif; other site 375286003942 NAD binding pocket [chemical binding]; other site 375286003943 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 375286003944 catalytic loop [active] 375286003945 iron binding site [ion binding]; other site 375286003946 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 375286003947 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 375286003948 iron-sulfur cluster [ion binding]; other site 375286003949 [2Fe-2S] cluster binding site [ion binding]; other site 375286003950 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 375286003951 alpha subunit interface [polypeptide binding]; other site 375286003952 active site 375286003953 substrate binding site [chemical binding]; other site 375286003954 Fe binding site [ion binding]; other site 375286003955 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 375286003956 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 375286003957 DnaJ domain; Region: DnaJ; pfam00226 375286003958 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 375286003959 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 375286003960 catalytic residues [active] 375286003961 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 375286003962 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 375286003963 catalytic residues [active] 375286003964 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 375286003965 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 375286003966 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 375286003967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375286003968 NADH(P)-binding; Region: NAD_binding_10; pfam13460 375286003969 NAD(P) binding site [chemical binding]; other site 375286003970 active site 375286003971 Uncharacterized conserved protein [Function unknown]; Region: COG2128 375286003972 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 375286003973 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 375286003974 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375286003975 DNA-binding site [nucleotide binding]; DNA binding site 375286003976 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 375286003977 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286003978 homodimer interface [polypeptide binding]; other site 375286003979 catalytic residue [active] 375286003980 RNA polymerase sigma factor; Provisional; Region: PRK12528 375286003981 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286003982 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 375286003983 DNA binding residues [nucleotide binding] 375286003984 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 375286003985 FecR protein; Region: FecR; pfam04773 375286003986 Secretin and TonB N terminus short domain; Region: STN; smart00965 375286003987 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 375286003988 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 375286003989 N-terminal plug; other site 375286003990 ligand-binding site [chemical binding]; other site 375286003991 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 375286003992 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 375286003993 active site 375286003994 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 375286003995 tartrate dehydrogenase; Region: TTC; TIGR02089 375286003996 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286003997 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286003998 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 375286003999 dimerization interface [polypeptide binding]; other site 375286004000 xanthine permease; Region: pbuX; TIGR03173 375286004001 N-ethylammeline chlorohydrolase; Provisional; Region: PRK07228 375286004002 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 375286004003 active site 375286004004 putative substrate binding pocket [chemical binding]; other site 375286004005 xanthine permease; Region: pbuX; TIGR03173 375286004006 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 375286004007 nucleoside/Zn binding site; other site 375286004008 dimer interface [polypeptide binding]; other site 375286004009 catalytic motif [active] 375286004010 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 375286004011 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375286004012 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 375286004013 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 375286004014 short chain dehydrogenase; Provisional; Region: PRK06180 375286004015 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 375286004016 NADP binding site [chemical binding]; other site 375286004017 active site 375286004018 steroid binding site; other site 375286004019 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 375286004020 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 375286004021 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286004022 homodimer interface [polypeptide binding]; other site 375286004023 catalytic residue [active] 375286004024 excinuclease ABC subunit B; Provisional; Region: PRK05298 375286004025 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 375286004026 ATP binding site [chemical binding]; other site 375286004027 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 375286004028 nucleotide binding region [chemical binding]; other site 375286004029 ATP-binding site [chemical binding]; other site 375286004030 Ultra-violet resistance protein B; Region: UvrB; pfam12344 375286004031 UvrB/uvrC motif; Region: UVR; pfam02151 375286004032 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 375286004033 ligand binding site [chemical binding]; other site 375286004034 active site 375286004035 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 375286004036 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375286004037 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 375286004038 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 375286004039 Rrf2 family protein; Region: rrf2_super; TIGR00738 375286004040 cysteine desulfurase; Provisional; Region: PRK14012 375286004041 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 375286004042 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 375286004043 catalytic residue [active] 375286004044 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 375286004045 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 375286004046 trimerization site [polypeptide binding]; other site 375286004047 active site 375286004048 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 375286004049 co-chaperone HscB; Provisional; Region: hscB; PRK03578 375286004050 DnaJ domain; Region: DnaJ; pfam00226 375286004051 HSP70 interaction site [polypeptide binding]; other site 375286004052 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 375286004053 chaperone protein HscA; Provisional; Region: hscA; PRK05183 375286004054 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 375286004055 nucleotide binding site [chemical binding]; other site 375286004056 putative NEF/HSP70 interaction site [polypeptide binding]; other site 375286004057 SBD interface [polypeptide binding]; other site 375286004058 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 375286004059 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 375286004060 catalytic loop [active] 375286004061 iron binding site [ion binding]; other site 375286004062 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 375286004063 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 375286004064 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 375286004065 dimer interface [polypeptide binding]; other site 375286004066 putative anticodon binding site; other site 375286004067 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 375286004068 motif 1; other site 375286004069 active site 375286004070 motif 2; other site 375286004071 motif 3; other site 375286004072 peptide chain release factor 2; Validated; Region: prfB; PRK00578 375286004073 This domain is found in peptide chain release factors; Region: PCRF; smart00937 375286004074 RF-1 domain; Region: RF-1; pfam00472 375286004075 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 375286004076 DHH family; Region: DHH; pfam01368 375286004077 DHHA1 domain; Region: DHHA1; pfam02272 375286004078 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 375286004079 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 375286004080 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 375286004081 FtsX-like permease family; Region: FtsX; pfam02687 375286004082 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 375286004083 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 375286004084 Walker A/P-loop; other site 375286004085 ATP binding site [chemical binding]; other site 375286004086 Q-loop/lid; other site 375286004087 ABC transporter signature motif; other site 375286004088 Walker B; other site 375286004089 D-loop; other site 375286004090 H-loop/switch region; other site 375286004091 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 375286004092 active site 375286004093 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 375286004094 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 375286004095 Competence protein; Region: Competence; pfam03772 375286004096 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 375286004097 CTP synthetase; Validated; Region: pyrG; PRK05380 375286004098 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 375286004099 Catalytic site [active] 375286004100 active site 375286004101 UTP binding site [chemical binding]; other site 375286004102 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 375286004103 active site 375286004104 putative oxyanion hole; other site 375286004105 catalytic triad [active] 375286004106 enolase; Provisional; Region: eno; PRK00077 375286004107 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 375286004108 dimer interface [polypeptide binding]; other site 375286004109 metal binding site [ion binding]; metal-binding site 375286004110 substrate binding pocket [chemical binding]; other site 375286004111 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 375286004112 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 375286004113 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 375286004114 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 375286004115 dimerization interface [polypeptide binding]; other site 375286004116 domain crossover interface; other site 375286004117 redox-dependent activation switch; other site 375286004118 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 375286004119 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 375286004120 trimer interface [polypeptide binding]; other site 375286004121 putative metal binding site [ion binding]; other site 375286004122 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 375286004123 dinuclear metal binding motif [ion binding]; other site 375286004124 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 375286004125 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 375286004126 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 375286004127 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 375286004128 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 375286004129 active site 375286004130 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 375286004131 heat shock protein HtpX; Provisional; Region: PRK05457 375286004132 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 375286004133 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 375286004134 Peptidase family M50; Region: Peptidase_M50; pfam02163 375286004135 active site 375286004136 putative substrate binding region [chemical binding]; other site 375286004137 Methyltransferase domain; Region: Methyltransf_23; pfam13489 375286004138 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 375286004139 S-adenosylmethionine binding site [chemical binding]; other site 375286004140 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 375286004141 dihydrodipicolinate synthase; Region: dapA; TIGR00674 375286004142 dimer interface [polypeptide binding]; other site 375286004143 active site 375286004144 catalytic residue [active] 375286004145 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 375286004146 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 375286004147 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 375286004148 Uncharacterized conserved protein [Function unknown]; Region: COG2850 375286004149 Cupin-like domain; Region: Cupin_8; pfam13621 375286004150 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 375286004151 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 375286004152 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 375286004153 MutS domain I; Region: MutS_I; pfam01624 375286004154 MutS domain II; Region: MutS_II; pfam05188 375286004155 MutS domain III; Region: MutS_III; pfam05192 375286004156 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 375286004157 Walker A/P-loop; other site 375286004158 ATP binding site [chemical binding]; other site 375286004159 Q-loop/lid; other site 375286004160 ABC transporter signature motif; other site 375286004161 Walker B; other site 375286004162 D-loop; other site 375286004163 H-loop/switch region; other site 375286004164 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 375286004165 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375286004166 DNA-binding site [nucleotide binding]; DNA binding site 375286004167 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 375286004168 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 375286004169 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 375286004170 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 375286004171 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 375286004172 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 375286004173 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 375286004174 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 375286004175 trimer interface [polypeptide binding]; other site 375286004176 eyelet of channel; other site 375286004177 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 375286004178 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 375286004179 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 375286004180 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 375286004181 ATP binding site [chemical binding]; other site 375286004182 Mg++ binding site [ion binding]; other site 375286004183 motif III; other site 375286004184 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 375286004185 nucleotide binding region [chemical binding]; other site 375286004186 ATP-binding site [chemical binding]; other site 375286004187 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 375286004188 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 375286004189 active site 375286004190 dimerization interface [polypeptide binding]; other site 375286004191 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 375286004192 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 375286004193 LexA repressor; Validated; Region: PRK00215 375286004194 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 375286004195 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 375286004196 Catalytic site [active] 375286004197 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 375286004198 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 375286004199 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 375286004200 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 375286004201 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 375286004202 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 375286004203 replicative DNA helicase; Provisional; Region: PRK07004 375286004204 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 375286004205 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 375286004206 Walker A motif; other site 375286004207 ATP binding site [chemical binding]; other site 375286004208 Walker B motif; other site 375286004209 DNA binding loops [nucleotide binding] 375286004210 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 375286004211 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 375286004212 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 375286004213 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 375286004214 putative active site [active] 375286004215 PhoH-like protein; Region: PhoH; pfam02562 375286004216 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 375286004217 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 375286004218 catalytic triad [active] 375286004219 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 375286004220 aminotransferase AlaT; Validated; Region: PRK09265 375286004221 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 375286004222 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286004223 homodimer interface [polypeptide binding]; other site 375286004224 catalytic residue [active] 375286004225 homoserine dehydrogenase; Provisional; Region: PRK06349 375286004226 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 375286004227 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 375286004228 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 375286004229 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 375286004230 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 375286004231 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286004232 catalytic residue [active] 375286004233 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 375286004234 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 375286004235 dimer interface [polypeptide binding]; other site 375286004236 putative functional site; other site 375286004237 putative MPT binding site; other site 375286004238 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 375286004239 MoaE interaction surface [polypeptide binding]; other site 375286004240 MoeB interaction surface [polypeptide binding]; other site 375286004241 thiocarboxylated glycine; other site 375286004242 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 375286004243 MoaE homodimer interface [polypeptide binding]; other site 375286004244 MoaD interaction [polypeptide binding]; other site 375286004245 active site residues [active] 375286004246 chromosome condensation membrane protein; Provisional; Region: PRK14196 375286004247 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 375286004248 Clp amino terminal domain; Region: Clp_N; pfam02861 375286004249 Clp amino terminal domain; Region: Clp_N; pfam02861 375286004250 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 375286004251 Walker A motif; other site 375286004252 ATP binding site [chemical binding]; other site 375286004253 Walker B motif; other site 375286004254 arginine finger; other site 375286004255 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 375286004256 Walker A motif; other site 375286004257 ATP binding site [chemical binding]; other site 375286004258 Walker B motif; other site 375286004259 arginine finger; other site 375286004260 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 375286004261 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 375286004262 Proline dehydrogenase; Region: Pro_dh; pfam01619 375286004263 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 375286004264 Glutamate binding site [chemical binding]; other site 375286004265 NAD binding site [chemical binding]; other site 375286004266 catalytic residues [active] 375286004267 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 375286004268 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 375286004269 N-terminal plug; other site 375286004270 ligand-binding site [chemical binding]; other site 375286004271 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 375286004272 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286004273 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 375286004274 putative dimerization interface [polypeptide binding]; other site 375286004275 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 375286004276 CIMS - Cobalamine-independent methonine synthase, or MetE, N-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_N_terminal_like; cd03312 375286004277 THF binding site; other site 375286004278 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 375286004279 substrate binding site [chemical binding]; other site 375286004280 THF binding site; other site 375286004281 zinc-binding site [ion binding]; other site 375286004282 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 375286004283 EAL domain; Region: EAL; pfam00563 375286004284 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 375286004285 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 375286004286 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 375286004287 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 375286004288 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 375286004289 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 375286004290 Zn2+ binding site [ion binding]; other site 375286004291 Mg2+ binding site [ion binding]; other site 375286004292 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 375286004293 synthetase active site [active] 375286004294 NTP binding site [chemical binding]; other site 375286004295 metal binding site [ion binding]; metal-binding site 375286004296 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 375286004297 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 375286004298 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 375286004299 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 375286004300 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 375286004301 catalytic site [active] 375286004302 G-X2-G-X-G-K; other site 375286004303 hypothetical protein; Provisional; Region: PRK11820 375286004304 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 375286004305 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 375286004306 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 375286004307 Catalytic domain of Protein Kinases; Region: PKc; cd00180 375286004308 active site 375286004309 ATP binding site [chemical binding]; other site 375286004310 substrate binding site [chemical binding]; other site 375286004311 activation loop (A-loop); other site 375286004312 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 375286004313 Protein phosphatase 2C; Region: PP2C; pfam00481 375286004314 active site 375286004315 ribonuclease PH; Reviewed; Region: rph; PRK00173 375286004316 Ribonuclease PH; Region: RNase_PH_bact; cd11362 375286004317 hexamer interface [polypeptide binding]; other site 375286004318 active site 375286004319 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 375286004320 active site 375286004321 dimerization interface [polypeptide binding]; other site 375286004322 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 375286004323 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 375286004324 FeS/SAM binding site; other site 375286004325 HemN C-terminal domain; Region: HemN_C; pfam06969 375286004326 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 375286004327 dimerization interface [polypeptide binding]; other site 375286004328 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 375286004329 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375286004330 dimer interface [polypeptide binding]; other site 375286004331 putative CheW interface [polypeptide binding]; other site 375286004332 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 375286004333 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 375286004334 non-specific DNA binding site [nucleotide binding]; other site 375286004335 salt bridge; other site 375286004336 sequence-specific DNA binding site [nucleotide binding]; other site 375286004337 RES domain; Region: RES; pfam08808 375286004338 Autotransporter beta-domain; Region: Autotransporter; pfam03797 375286004339 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 375286004340 FtsX-like permease family; Region: FtsX; pfam02687 375286004341 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 375286004342 apolar tunnel; other site 375286004343 heme binding site [chemical binding]; other site 375286004344 dimerization interface [polypeptide binding]; other site 375286004345 RmuC family; Region: RmuC; pfam02646 375286004346 riboflavin synthase subunit beta; Provisional; Region: PRK12419 375286004347 active site 375286004348 homopentamer interface [polypeptide binding]; other site 375286004349 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 375286004350 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 375286004351 homodimer interface [polypeptide binding]; other site 375286004352 oligonucleotide binding site [chemical binding]; other site 375286004353 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 375286004354 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 375286004355 RNA binding surface [nucleotide binding]; other site 375286004356 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 375286004357 active site 375286004358 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 375286004359 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 375286004360 motif II; other site 375286004361 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 375286004362 iron-sulfur cluster [ion binding]; other site 375286004363 [2Fe-2S] cluster binding site [ion binding]; other site 375286004364 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 375286004365 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 375286004366 tandem repeat interface [polypeptide binding]; other site 375286004367 oligomer interface [polypeptide binding]; other site 375286004368 active site residues [active] 375286004369 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 375286004370 putative SAM binding site [chemical binding]; other site 375286004371 homodimer interface [polypeptide binding]; other site 375286004372 Maf-like protein; Region: Maf; pfam02545 375286004373 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 375286004374 active site 375286004375 dimer interface [polypeptide binding]; other site 375286004376 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 375286004377 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 375286004378 putative phosphate acyltransferase; Provisional; Region: PRK05331 375286004379 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 375286004380 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 375286004381 dimer interface [polypeptide binding]; other site 375286004382 active site 375286004383 CoA binding pocket [chemical binding]; other site 375286004384 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 375286004385 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 375286004386 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 375286004387 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 375286004388 NAD(P) binding site [chemical binding]; other site 375286004389 homotetramer interface [polypeptide binding]; other site 375286004390 homodimer interface [polypeptide binding]; other site 375286004391 active site 375286004392 acyl carrier protein; Provisional; Region: acpP; PRK00982 375286004393 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 375286004394 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 375286004395 dimer interface [polypeptide binding]; other site 375286004396 active site 375286004397 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 375286004398 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286004399 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 375286004400 DNA binding residues [nucleotide binding] 375286004401 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 375286004402 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 375286004403 anti-sigma E factor; Provisional; Region: rseB; PRK09455 375286004404 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 375286004405 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 375286004406 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 375286004407 protein binding site [polypeptide binding]; other site 375286004408 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 375286004409 protein binding site [polypeptide binding]; other site 375286004410 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 375286004411 GTP-binding protein LepA; Provisional; Region: PRK05433 375286004412 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 375286004413 G1 box; other site 375286004414 putative GEF interaction site [polypeptide binding]; other site 375286004415 GTP/Mg2+ binding site [chemical binding]; other site 375286004416 Switch I region; other site 375286004417 G2 box; other site 375286004418 G3 box; other site 375286004419 Switch II region; other site 375286004420 G4 box; other site 375286004421 G5 box; other site 375286004422 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 375286004423 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 375286004424 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 375286004425 signal peptidase I; Provisional; Region: PRK10861 375286004426 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 375286004427 Catalytic site [active] 375286004428 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 375286004429 ribonuclease III; Reviewed; Region: rnc; PRK00102 375286004430 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 375286004431 dimerization interface [polypeptide binding]; other site 375286004432 active site 375286004433 metal binding site [ion binding]; metal-binding site 375286004434 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 375286004435 dsRNA binding site [nucleotide binding]; other site 375286004436 GTPase Era; Reviewed; Region: era; PRK00089 375286004437 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 375286004438 G1 box; other site 375286004439 GTP/Mg2+ binding site [chemical binding]; other site 375286004440 Switch I region; other site 375286004441 G2 box; other site 375286004442 Switch II region; other site 375286004443 G3 box; other site 375286004444 G4 box; other site 375286004445 G5 box; other site 375286004446 KH domain; Region: KH_2; pfam07650 375286004447 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 375286004448 Recombination protein O N terminal; Region: RecO_N; pfam11967 375286004449 Recombination protein O C terminal; Region: RecO_C; pfam02565 375286004450 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 375286004451 active site 375286004452 hydrophilic channel; other site 375286004453 dimerization interface [polypeptide binding]; other site 375286004454 catalytic residues [active] 375286004455 active site lid [active] 375286004456 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 375286004457 beta-hexosaminidase; Provisional; Region: PRK05337 375286004458 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 375286004459 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 375286004460 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 375286004461 GIY-YIG motif/motif A; other site 375286004462 active site 375286004463 catalytic site [active] 375286004464 putative DNA binding site [nucleotide binding]; other site 375286004465 metal binding site [ion binding]; metal-binding site 375286004466 UvrB/uvrC motif; Region: UVR; pfam02151 375286004467 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 375286004468 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 375286004469 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 375286004470 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 375286004471 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 375286004472 putative active site [active] 375286004473 putative catalytic site [active] 375286004474 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 375286004475 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 375286004476 C-terminal domain interface [polypeptide binding]; other site 375286004477 GSH binding site (G-site) [chemical binding]; other site 375286004478 dimer interface [polypeptide binding]; other site 375286004479 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 375286004480 N-terminal domain interface [polypeptide binding]; other site 375286004481 putative dimer interface [polypeptide binding]; other site 375286004482 active site 375286004483 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 375286004484 catalytic core [active] 375286004485 enoyl-CoA hydratase; Provisional; Region: PRK07511 375286004486 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 375286004487 substrate binding site [chemical binding]; other site 375286004488 oxyanion hole (OAH) forming residues; other site 375286004489 trimer interface [polypeptide binding]; other site 375286004490 methionine aminotransferase; Validated; Region: PRK09082 375286004491 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 375286004492 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286004493 homodimer interface [polypeptide binding]; other site 375286004494 catalytic residue [active] 375286004495 PIN domain; Region: PIN_3; pfam13470 375286004496 hypothetical protein; Validated; Region: PRK02101 375286004497 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 375286004498 hypothetical protein; Validated; Region: PRK09039 375286004499 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 375286004500 HlyD family secretion protein; Region: HlyD_3; pfam13437 375286004501 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 375286004502 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 375286004503 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375286004504 Walker A/P-loop; other site 375286004505 ATP binding site [chemical binding]; other site 375286004506 Q-loop/lid; other site 375286004507 ABC transporter signature motif; other site 375286004508 Walker B; other site 375286004509 D-loop; other site 375286004510 H-loop/switch region; other site 375286004511 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 375286004512 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 375286004513 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 375286004514 binding surface 375286004515 TPR motif; other site 375286004516 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 375286004517 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 375286004518 RNA binding surface [nucleotide binding]; other site 375286004519 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 375286004520 active site 375286004521 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 375286004522 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 375286004523 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 375286004524 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 375286004525 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 375286004526 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 375286004527 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 375286004528 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 375286004529 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 375286004530 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 375286004531 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 375286004532 FeS/SAM binding site; other site 375286004533 TRAM domain; Region: TRAM; cl01282 375286004534 cystathionine beta-lyase; Provisional; Region: PRK07050 375286004535 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 375286004536 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 375286004537 catalytic residue [active] 375286004538 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_8; cd08495 375286004539 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 375286004540 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 375286004541 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286004542 dimer interface [polypeptide binding]; other site 375286004543 conserved gate region; other site 375286004544 putative PBP binding loops; other site 375286004545 ABC-ATPase subunit interface; other site 375286004546 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 375286004547 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 375286004548 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286004549 dimer interface [polypeptide binding]; other site 375286004550 conserved gate region; other site 375286004551 putative PBP binding loops; other site 375286004552 ABC-ATPase subunit interface; other site 375286004553 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 375286004554 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 375286004555 Walker A/P-loop; other site 375286004556 ATP binding site [chemical binding]; other site 375286004557 Q-loop/lid; other site 375286004558 ABC transporter signature motif; other site 375286004559 Walker B; other site 375286004560 D-loop; other site 375286004561 H-loop/switch region; other site 375286004562 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 375286004563 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 375286004564 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 375286004565 Walker A/P-loop; other site 375286004566 ATP binding site [chemical binding]; other site 375286004567 Q-loop/lid; other site 375286004568 ABC transporter signature motif; other site 375286004569 Walker B; other site 375286004570 D-loop; other site 375286004571 H-loop/switch region; other site 375286004572 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 375286004573 Predicted membrane protein [Function unknown]; Region: COG3671 375286004574 phosphoserine phosphatase SerB; Region: serB; TIGR00338 375286004575 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 375286004576 motif II; other site 375286004577 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 375286004578 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 375286004579 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 375286004580 ATP binding site [chemical binding]; other site 375286004581 putative Mg++ binding site [ion binding]; other site 375286004582 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 375286004583 nucleotide binding region [chemical binding]; other site 375286004584 ATP-binding site [chemical binding]; other site 375286004585 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 375286004586 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 375286004587 substrate binding site; other site 375286004588 dimer interface; other site 375286004589 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 375286004590 homotrimer interaction site [polypeptide binding]; other site 375286004591 zinc binding site [ion binding]; other site 375286004592 CDP-binding sites; other site 375286004593 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 375286004594 HAMP domain; Region: HAMP; pfam00672 375286004595 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 375286004596 dimer interface [polypeptide binding]; other site 375286004597 phosphorylation site [posttranslational modification] 375286004598 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286004599 ATP binding site [chemical binding]; other site 375286004600 Mg2+ binding site [ion binding]; other site 375286004601 G-X-G motif; other site 375286004602 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 375286004603 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286004604 active site 375286004605 phosphorylation site [posttranslational modification] 375286004606 intermolecular recognition site; other site 375286004607 dimerization interface [polypeptide binding]; other site 375286004608 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 375286004609 DNA binding site [nucleotide binding] 375286004610 FlgN protein; Region: FlgN; pfam05130 375286004611 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 375286004612 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 375286004613 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 375286004614 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 375286004615 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 375286004616 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 375286004617 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 375286004618 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 375286004619 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 375286004620 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 375286004621 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 375286004622 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 375286004623 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 375286004624 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 375286004625 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 375286004626 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 375286004627 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 375286004628 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 375286004629 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 375286004630 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 375286004631 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 375286004632 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 375286004633 Flagellar L-ring protein; Region: FlgH; pfam02107 375286004634 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 375286004635 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 375286004636 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 375286004637 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 375286004638 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 375286004639 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 375286004640 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 375286004641 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 375286004642 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 375286004643 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 375286004644 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 375286004645 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 375286004646 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 375286004647 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 375286004648 flagellar motor switch protein; Validated; Region: fliN; PRK05698 375286004649 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 375286004650 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 375286004651 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 375286004652 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 375286004653 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 375286004654 Flagellar FliJ protein; Region: FliJ; pfam02050 375286004655 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 375286004656 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 375286004657 Walker A motif/ATP binding site; other site 375286004658 Walker B motif; other site 375286004659 Flagellar assembly protein FliH; Region: FliH; pfam02108 375286004660 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 375286004661 FliG C-terminal domain; Region: FliG_C; pfam01706 375286004662 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 375286004663 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 375286004664 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 375286004665 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 375286004666 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 375286004667 Flagellar regulator YcgR; Region: YcgR; pfam07317 375286004668 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 375286004669 PilZ domain; Region: PilZ; pfam07238 375286004670 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 375286004671 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 375286004672 Flagellar protein FliT; Region: FliT; pfam05400 375286004673 flagellar protein FliS; Validated; Region: fliS; PRK05685 375286004674 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 375286004675 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 375286004676 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 375286004677 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 375286004678 FlaG protein; Region: FlaG; pfam03646 375286004679 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 375286004680 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 375286004681 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286004682 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286004683 metal binding site [ion binding]; metal-binding site 375286004684 active site 375286004685 I-site; other site 375286004686 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 375286004687 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286004688 active site 375286004689 phosphorylation site [posttranslational modification] 375286004690 intermolecular recognition site; other site 375286004691 dimerization interface [polypeptide binding]; other site 375286004692 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 375286004693 DNA binding residues [nucleotide binding] 375286004694 dimerization interface [polypeptide binding]; other site 375286004695 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 375286004696 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 375286004697 Histidine kinase; Region: HisKA_3; pfam07730 375286004698 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286004699 ATP binding site [chemical binding]; other site 375286004700 Mg2+ binding site [ion binding]; other site 375286004701 G-X-G motif; other site 375286004702 glutamate dehydrogenase; Provisional; Region: PRK09414 375286004703 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 375286004704 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 375286004705 NAD(P) binding site [chemical binding]; other site 375286004706 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 375286004707 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 375286004708 putative substrate translocation pore; other site 375286004709 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 375286004710 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 375286004711 16S/18S rRNA binding site [nucleotide binding]; other site 375286004712 S13e-L30e interaction site [polypeptide binding]; other site 375286004713 25S rRNA binding site [nucleotide binding]; other site 375286004714 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 375286004715 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 375286004716 RNase E interface [polypeptide binding]; other site 375286004717 trimer interface [polypeptide binding]; other site 375286004718 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 375286004719 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 375286004720 RNase E interface [polypeptide binding]; other site 375286004721 trimer interface [polypeptide binding]; other site 375286004722 active site 375286004723 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 375286004724 putative nucleic acid binding region [nucleotide binding]; other site 375286004725 G-X-X-G motif; other site 375286004726 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 375286004727 RNA binding site [nucleotide binding]; other site 375286004728 domain interface; other site 375286004729 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 375286004730 triosephosphate isomerase; Provisional; Region: PRK14565 375286004731 substrate binding site [chemical binding]; other site 375286004732 dimer interface [polypeptide binding]; other site 375286004733 catalytic triad [active] 375286004734 Preprotein translocase SecG subunit; Region: SecG; pfam03840 375286004735 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 375286004736 NADH dehydrogenase subunit B; Validated; Region: PRK06411 375286004737 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 375286004738 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 375286004739 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 375286004740 NADH dehydrogenase subunit D; Validated; Region: PRK06075 375286004741 NADH dehydrogenase subunit E; Validated; Region: PRK07539 375286004742 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 375286004743 putative dimer interface [polypeptide binding]; other site 375286004744 [2Fe-2S] cluster binding site [ion binding]; other site 375286004745 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 375286004746 SLBB domain; Region: SLBB; pfam10531 375286004747 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 375286004748 NADH dehydrogenase subunit G; Validated; Region: PRK09129 375286004749 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 375286004750 catalytic loop [active] 375286004751 iron binding site [ion binding]; other site 375286004752 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 375286004753 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 375286004754 Molybdopterin-Binding, C-terminal (MopB_CT) 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-...; Region: MopB_CT; cd02775 375286004755 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 375286004756 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 375286004757 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 375286004758 4Fe-4S binding domain; Region: Fer4; pfam00037 375286004759 4Fe-4S binding domain; Region: Fer4; pfam00037 375286004760 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 375286004761 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 375286004762 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 375286004763 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 375286004764 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 375286004765 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 375286004766 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 375286004767 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 375286004768 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 375286004769 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 375286004770 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 375286004771 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 375286004772 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 375286004773 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 375286004774 dimer interface [polypeptide binding]; other site 375286004775 ADP-ribose binding site [chemical binding]; other site 375286004776 active site 375286004777 nudix motif; other site 375286004778 metal binding site [ion binding]; metal-binding site 375286004779 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 375286004780 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 375286004781 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 375286004782 short chain dehydrogenase; Provisional; Region: PRK06949 375286004783 classical (c) SDRs; Region: SDR_c; cd05233 375286004784 NAD(P) binding site [chemical binding]; other site 375286004785 active site 375286004786 PAS domain S-box; Region: sensory_box; TIGR00229 375286004787 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 375286004788 putative active site [active] 375286004789 heme pocket [chemical binding]; other site 375286004790 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 375286004791 DNA binding residues [nucleotide binding] 375286004792 dimerization interface [polypeptide binding]; other site 375286004793 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 375286004794 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 375286004795 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 375286004796 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 375286004797 NAD binding site [chemical binding]; other site 375286004798 homotetramer interface [polypeptide binding]; other site 375286004799 homodimer interface [polypeptide binding]; other site 375286004800 substrate binding site [chemical binding]; other site 375286004801 active site 375286004802 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 375286004803 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 375286004804 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 375286004805 homotrimer interaction site [polypeptide binding]; other site 375286004806 putative active site [active] 375286004807 HD domain; Region: HD_4; pfam13328 375286004808 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 375286004809 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 375286004810 synthetase active site [active] 375286004811 NTP binding site [chemical binding]; other site 375286004812 metal binding site [ion binding]; metal-binding site 375286004813 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 375286004814 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 375286004815 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 375286004816 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 375286004817 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 375286004818 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 375286004819 active site 375286004820 dimer interface [polypeptide binding]; other site 375286004821 motif 1; other site 375286004822 motif 2; other site 375286004823 motif 3; other site 375286004824 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 375286004825 anticodon binding site; other site 375286004826 translation initiation factor IF-3; Region: infC; TIGR00168 375286004827 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 375286004828 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 375286004829 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 375286004830 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 375286004831 23S rRNA binding site [nucleotide binding]; other site 375286004832 L21 binding site [polypeptide binding]; other site 375286004833 L13 binding site [polypeptide binding]; other site 375286004834 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 375286004835 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 375286004836 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 375286004837 dimer interface [polypeptide binding]; other site 375286004838 motif 1; other site 375286004839 active site 375286004840 motif 2; other site 375286004841 motif 3; other site 375286004842 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 375286004843 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 375286004844 putative tRNA-binding site [nucleotide binding]; other site 375286004845 B3/4 domain; Region: B3_4; pfam03483 375286004846 tRNA synthetase B5 domain; Region: B5; smart00874 375286004847 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 375286004848 dimer interface [polypeptide binding]; other site 375286004849 motif 1; other site 375286004850 motif 3; other site 375286004851 motif 2; other site 375286004852 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 375286004853 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 375286004854 IHF - DNA interface [nucleotide binding]; other site 375286004855 IHF dimer interface [polypeptide binding]; other site 375286004856 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 375286004857 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 375286004858 DNA binding residues [nucleotide binding] 375286004859 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 375286004860 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375286004861 dimer interface [polypeptide binding]; other site 375286004862 putative CheW interface [polypeptide binding]; other site 375286004863 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 375286004864 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 375286004865 Conserved nitrate reductase-associated protein (Nitr_red_assoc); Region: Nitr_red_assoc; pfam09655 375286004866 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 375286004867 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 375286004868 active site 375286004869 Zn binding site [ion binding]; other site 375286004870 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 375286004871 putative active site [active] 375286004872 putative metal binding residues [ion binding]; other site 375286004873 signature motif; other site 375286004874 putative dimer interface [polypeptide binding]; other site 375286004875 putative phosphate binding site [ion binding]; other site 375286004876 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 375286004877 aconitate hydratase; Validated; Region: PRK09277 375286004878 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 375286004879 substrate binding site [chemical binding]; other site 375286004880 ligand binding site [chemical binding]; other site 375286004881 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 375286004882 substrate binding site [chemical binding]; other site 375286004883 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 375286004884 malate dehydrogenase; Provisional; Region: PRK05442 375286004885 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 375286004886 NAD(P) binding site [chemical binding]; other site 375286004887 dimer interface [polypeptide binding]; other site 375286004888 malate binding site [chemical binding]; other site 375286004889 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 375286004890 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375286004891 DNA-binding site [nucleotide binding]; DNA binding site 375286004892 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 375286004893 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 375286004894 Iron-sulfur protein interface; other site 375286004895 proximal quinone binding site [chemical binding]; other site 375286004896 SdhD (CybS) interface [polypeptide binding]; other site 375286004897 proximal heme binding site [chemical binding]; other site 375286004898 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 375286004899 SdhC subunit interface [polypeptide binding]; other site 375286004900 proximal heme binding site [chemical binding]; other site 375286004901 cardiolipin binding site; other site 375286004902 Iron-sulfur protein interface; other site 375286004903 proximal quinone binding site [chemical binding]; other site 375286004904 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 375286004905 L-aspartate oxidase; Provisional; Region: PRK06175 375286004906 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 375286004907 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 375286004908 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 375286004909 Flavinator of succinate dehydrogenase; Region: Sdh5; pfam03937 375286004910 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 375286004911 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 375286004912 dimer interface [polypeptide binding]; other site 375286004913 active site 375286004914 citrylCoA binding site [chemical binding]; other site 375286004915 NADH binding [chemical binding]; other site 375286004916 cationic pore residues; other site 375286004917 oxalacetate/citrate binding site [chemical binding]; other site 375286004918 coenzyme A binding site [chemical binding]; other site 375286004919 catalytic triad [active] 375286004920 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 375286004921 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 375286004922 TPP-binding site [chemical binding]; other site 375286004923 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 375286004924 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 375286004925 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 375286004926 E3 interaction surface; other site 375286004927 lipoyl attachment site [posttranslational modification]; other site 375286004928 e3 binding domain; Region: E3_binding; pfam02817 375286004929 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 375286004930 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 375286004931 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 375286004932 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 375286004933 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 375286004934 Predicted ATPase [General function prediction only]; Region: COG1485 375286004935 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 375286004936 DNA-binding site [nucleotide binding]; DNA binding site 375286004937 RNA-binding motif; other site 375286004938 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 375286004939 catalytic residues [active] 375286004940 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 375286004941 Glycoprotease family; Region: Peptidase_M22; pfam00814 375286004942 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 375286004943 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 375286004944 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 375286004945 Fe-S cluster binding site [ion binding]; other site 375286004946 active site 375286004947 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 375286004948 lysophospholipid transporter LplT; Provisional; Region: PRK11195 375286004949 alanine racemase; Reviewed; Region: dadX; PRK03646 375286004950 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 375286004951 active site 375286004952 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 375286004953 substrate binding site [chemical binding]; other site 375286004954 catalytic residues [active] 375286004955 dimer interface [polypeptide binding]; other site 375286004956 DNA repair protein RadA; Provisional; Region: PRK11823 375286004957 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 375286004958 Walker A motif/ATP binding site; other site 375286004959 ATP binding site [chemical binding]; other site 375286004960 Walker B motif; other site 375286004961 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 375286004962 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 375286004963 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 375286004964 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 375286004965 active site lid residues [active] 375286004966 substrate binding pocket [chemical binding]; other site 375286004967 catalytic residues [active] 375286004968 substrate-Mg2+ binding site; other site 375286004969 aspartate-rich region 1; other site 375286004970 aspartate-rich region 2; other site 375286004971 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 375286004972 active site lid residues [active] 375286004973 substrate binding pocket [chemical binding]; other site 375286004974 catalytic residues [active] 375286004975 substrate-Mg2+ binding site; other site 375286004976 aspartate-rich region 1; other site 375286004977 aspartate-rich region 2; other site 375286004978 trigger factor; Provisional; Region: tig; PRK01490 375286004979 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 375286004980 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 375286004981 Clp protease; Region: CLP_protease; pfam00574 375286004982 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 375286004983 oligomer interface [polypeptide binding]; other site 375286004984 active site residues [active] 375286004985 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 375286004986 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 375286004987 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 375286004988 Walker A motif; other site 375286004989 ATP binding site [chemical binding]; other site 375286004990 Walker B motif; other site 375286004991 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 375286004992 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 375286004993 Found in ATP-dependent protease La (LON); Region: LON; smart00464 375286004994 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 375286004995 Walker A motif; other site 375286004996 ATP binding site [chemical binding]; other site 375286004997 Walker B motif; other site 375286004998 arginine finger; other site 375286004999 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 375286005000 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 375286005001 IHF dimer interface [polypeptide binding]; other site 375286005002 IHF - DNA interface [nucleotide binding]; other site 375286005003 periplasmic folding chaperone; Provisional; Region: PRK10788 375286005004 SurA N-terminal domain; Region: SurA_N_3; cl07813 375286005005 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 375286005006 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 375286005007 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 375286005008 active site residue [active] 375286005009 AAA domain; Region: AAA_17; pfam13207 375286005010 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 375286005011 active site 375286005012 catalytic triad [active] 375286005013 oxyanion hole [active] 375286005014 switch loop; other site 375286005015 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 375286005016 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 375286005017 Walker A/P-loop; other site 375286005018 ATP binding site [chemical binding]; other site 375286005019 Q-loop/lid; other site 375286005020 ABC transporter signature motif; other site 375286005021 Walker B; other site 375286005022 D-loop; other site 375286005023 H-loop/switch region; other site 375286005024 putative carbohydrate kinase; Provisional; Region: PRK10565 375286005025 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 375286005026 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 375286005027 putative substrate binding site [chemical binding]; other site 375286005028 putative ATP binding site [chemical binding]; other site 375286005029 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 375286005030 hydroxyglutarate oxidase; Provisional; Region: PRK11728 375286005031 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 375286005032 Domain of unknown function DUF20; Region: UPF0118; pfam01594 375286005033 DoxX; Region: DoxX; pfam07681 375286005034 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 375286005035 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 375286005036 dimerization interface [polypeptide binding]; other site 375286005037 ATP binding site [chemical binding]; other site 375286005038 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 375286005039 dimerization interface [polypeptide binding]; other site 375286005040 ATP binding site [chemical binding]; other site 375286005041 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 375286005042 putative active site [active] 375286005043 catalytic triad [active] 375286005044 SurA N-terminal domain; Region: SurA_N_3; cl07813 375286005045 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 375286005046 BolA-like protein; Region: BolA; pfam01722 375286005047 intracellular septation protein A; Reviewed; Region: PRK00259 375286005048 methionine sulfoxide reductase B; Provisional; Region: PRK00222 375286005049 SelR domain; Region: SelR; pfam01641 375286005050 Uncharacterized conserved protein [Function unknown]; Region: COG0397 375286005051 hypothetical protein; Validated; Region: PRK00029 375286005052 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 375286005053 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 375286005054 putative ligand binding site [chemical binding]; other site 375286005055 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 375286005056 TM-ABC transporter signature motif; other site 375286005057 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 375286005058 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 375286005059 TM-ABC transporter signature motif; other site 375286005060 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 375286005061 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 375286005062 Walker A/P-loop; other site 375286005063 ATP binding site [chemical binding]; other site 375286005064 Q-loop/lid; other site 375286005065 ABC transporter signature motif; other site 375286005066 Walker B; other site 375286005067 D-loop; other site 375286005068 H-loop/switch region; other site 375286005069 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 375286005070 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 375286005071 Walker A/P-loop; other site 375286005072 ATP binding site [chemical binding]; other site 375286005073 Q-loop/lid; other site 375286005074 ABC transporter signature motif; other site 375286005075 Walker B; other site 375286005076 D-loop; other site 375286005077 H-loop/switch region; other site 375286005078 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 375286005079 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 375286005080 heme binding site [chemical binding]; other site 375286005081 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 375286005082 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 375286005083 dimer interface [polypeptide binding]; other site 375286005084 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 375286005085 ligand binding site [chemical binding]; other site 375286005086 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 375286005087 Predicted transcriptional regulators [Transcription]; Region: COG1733 375286005088 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 375286005089 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 375286005090 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 375286005091 salt bridge; other site 375286005092 non-specific DNA binding site [nucleotide binding]; other site 375286005093 sequence-specific DNA binding site [nucleotide binding]; other site 375286005094 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 375286005095 PLD-like domain; Region: PLDc_2; pfam13091 375286005096 putative active site [active] 375286005097 catalytic site [active] 375286005098 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 375286005099 PLD-like domain; Region: PLDc_2; pfam13091 375286005100 putative active site [active] 375286005101 catalytic site [active] 375286005102 Putative motility protein; Region: YjfB_motility; pfam14070 375286005103 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 375286005104 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 375286005105 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375286005106 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 375286005107 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 375286005108 HlyD family secretion protein; Region: HlyD_3; pfam13437 375286005109 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 375286005110 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 375286005111 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 375286005112 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 375286005113 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 375286005114 conserved cys residue [active] 375286005115 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375286005116 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375286005117 Transposase; Region: HTH_Tnp_1; cl17663 375286005118 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 375286005119 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 375286005120 putative NAD(P) binding site [chemical binding]; other site 375286005121 dimer interface [polypeptide binding]; other site 375286005122 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286005123 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286005124 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 375286005125 putative effector binding pocket; other site 375286005126 dimerization interface [polypeptide binding]; other site 375286005127 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375286005128 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 375286005129 NAD(P) binding site [chemical binding]; other site 375286005130 active site 375286005131 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286005132 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286005133 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 375286005134 dimerization interface [polypeptide binding]; other site 375286005135 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 375286005136 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 375286005137 PAS domain; Region: PAS_9; pfam13426 375286005138 putative active site [active] 375286005139 heme pocket [chemical binding]; other site 375286005140 GAF domain; Region: GAF_2; pfam13185 375286005141 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 375286005142 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286005143 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286005144 metal binding site [ion binding]; metal-binding site 375286005145 active site 375286005146 I-site; other site 375286005147 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286005148 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286005149 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 375286005150 putative dimerization interface [polypeptide binding]; other site 375286005151 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 375286005152 EamA-like transporter family; Region: EamA; pfam00892 375286005153 putative acetyltransferase; Provisional; Region: PRK03624 375286005154 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 375286005155 Coenzyme A binding pocket [chemical binding]; other site 375286005156 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 375286005157 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 375286005158 active site 375286005159 purine riboside binding site [chemical binding]; other site 375286005160 aminoglycoside resistance protein; Provisional; Region: PRK13746 375286005161 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 375286005162 active site 375286005163 NTP binding site [chemical binding]; other site 375286005164 metal binding triad [ion binding]; metal-binding site 375286005165 antibiotic binding site [chemical binding]; other site 375286005166 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 375286005167 Restriction endonuclease; Region: Mrr_cat; pfam04471 375286005168 Transcriptional regulators [Transcription]; Region: MarR; COG1846 375286005169 MarR family; Region: MarR_2; pfam12802 375286005170 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 375286005171 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 375286005172 Cl- selectivity filter; other site 375286005173 Cl- binding residues [ion binding]; other site 375286005174 pore gating glutamate residue; other site 375286005175 dimer interface [polypeptide binding]; other site 375286005176 FOG: CBS domain [General function prediction only]; Region: COG0517 375286005177 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 375286005178 PAS domain S-box; Region: sensory_box; TIGR00229 375286005179 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 375286005180 putative active site [active] 375286005181 heme pocket [chemical binding]; other site 375286005182 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 375286005183 HPP family; Region: HPP; pfam04982 375286005184 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 375286005185 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 375286005186 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 375286005187 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 375286005188 phosphate binding site [ion binding]; other site 375286005189 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 375286005190 putative substrate translocation pore; other site 375286005191 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 375286005192 putative DNA binding site [nucleotide binding]; other site 375286005193 Predicted transcriptional regulator [Transcription]; Region: COG2345 375286005194 putative Zn2+ binding site [ion binding]; other site 375286005195 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 375286005196 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 375286005197 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286005198 active site 375286005199 phosphorylation site [posttranslational modification] 375286005200 intermolecular recognition site; other site 375286005201 dimerization interface [polypeptide binding]; other site 375286005202 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 375286005203 DNA binding site [nucleotide binding] 375286005204 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 375286005205 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 375286005206 Autotransporter beta-domain; Region: Autotransporter; smart00869 375286005207 Predicted transcriptional regulators [Transcription]; Region: COG1733 375286005208 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 375286005209 putative glutathione S-transferase; Provisional; Region: PRK10357 375286005210 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 375286005211 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 375286005212 N-terminal domain interface [polypeptide binding]; other site 375286005213 dimer interface [polypeptide binding]; other site 375286005214 substrate binding pocket (H-site) [chemical binding]; other site 375286005215 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 375286005216 Major Facilitator Superfamily; Region: MFS_1; pfam07690 375286005217 putative substrate translocation pore; other site 375286005218 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286005219 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286005220 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 375286005221 dimerization interface [polypeptide binding]; other site 375286005222 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 375286005223 Response regulator receiver domain; Region: Response_reg; pfam00072 375286005224 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286005225 active site 375286005226 phosphorylation site [posttranslational modification] 375286005227 intermolecular recognition site; other site 375286005228 dimerization interface [polypeptide binding]; other site 375286005229 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375286005230 putative CheW interface [polypeptide binding]; other site 375286005231 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 375286005232 dimerization interface [polypeptide binding]; other site 375286005233 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 375286005234 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 375286005235 putative binding surface; other site 375286005236 active site 375286005237 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286005238 ATP binding site [chemical binding]; other site 375286005239 Mg2+ binding site [ion binding]; other site 375286005240 G-X-G motif; other site 375286005241 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 375286005242 dimerization interface [polypeptide binding]; other site 375286005243 putative DNA binding site [nucleotide binding]; other site 375286005244 putative Zn2+ binding site [ion binding]; other site 375286005245 MFS transport protein AraJ; Provisional; Region: PRK10091 375286005246 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 375286005247 putative substrate translocation pore; other site 375286005248 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 375286005249 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 375286005250 FMN binding site [chemical binding]; other site 375286005251 active site 375286005252 substrate binding site [chemical binding]; other site 375286005253 catalytic residue [active] 375286005254 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 375286005255 Coenzyme A binding pocket [chemical binding]; other site 375286005256 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 375286005257 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286005258 ATP binding site [chemical binding]; other site 375286005259 Mg2+ binding site [ion binding]; other site 375286005260 G-X-G motif; other site 375286005261 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 375286005262 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286005263 active site 375286005264 phosphorylation site [posttranslational modification] 375286005265 intermolecular recognition site; other site 375286005266 dimerization interface [polypeptide binding]; other site 375286005267 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 375286005268 DNA binding residues [nucleotide binding] 375286005269 dimerization interface [polypeptide binding]; other site 375286005270 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 375286005271 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 375286005272 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 375286005273 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 375286005274 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 375286005275 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 375286005276 Surface antigen; Region: Bac_surface_Ag; pfam01103 375286005277 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 375286005278 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 375286005279 ABC-2 type transporter; Region: ABC2_membrane; cl17235 375286005280 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 375286005281 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 375286005282 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 375286005283 Walker A/P-loop; other site 375286005284 ATP binding site [chemical binding]; other site 375286005285 Q-loop/lid; other site 375286005286 ABC transporter signature motif; other site 375286005287 Walker B; other site 375286005288 D-loop; other site 375286005289 H-loop/switch region; other site 375286005290 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375286005291 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 375286005292 NAD(P) binding site [chemical binding]; other site 375286005293 active site 375286005294 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 375286005295 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 375286005296 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286005297 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286005298 metal binding site [ion binding]; metal-binding site 375286005299 active site 375286005300 I-site; other site 375286005301 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 375286005302 active site 375286005303 homotetramer interface [polypeptide binding]; other site 375286005304 homodimer interface [polypeptide binding]; other site 375286005305 Protein of unknown function (DUF3260); Region: DUF3260; pfam11658 375286005306 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 375286005307 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 375286005308 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 375286005309 FeS/SAM binding site; other site 375286005310 Protein of unknown function (DUF464); Region: DUF464; cl01080 375286005311 HemN C-terminal domain; Region: HemN_C; pfam06969 375286005312 Family description; Region: DsbD_2; pfam13386 375286005313 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 375286005314 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 375286005315 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 375286005316 metal-binding site [ion binding] 375286005317 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 375286005318 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 375286005319 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 375286005320 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 375286005321 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 375286005322 Low-spin heme binding site [chemical binding]; other site 375286005323 Putative water exit pathway; other site 375286005324 Binuclear center (active site) [active] 375286005325 Putative proton exit pathway; other site 375286005326 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 375286005327 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 375286005328 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 375286005329 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 375286005330 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 375286005331 Cytochrome c; Region: Cytochrom_C; pfam00034 375286005332 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 375286005333 4Fe-4S binding domain; Region: Fer4_5; pfam12801 375286005334 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 375286005335 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 375286005336 FixH; Region: FixH; pfam05751 375286005337 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 375286005338 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375286005339 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 375286005340 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 375286005341 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 375286005342 Autotransporter beta-domain; Region: Autotransporter; pfam03797 375286005343 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 375286005344 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 375286005345 ligand binding site [chemical binding]; other site 375286005346 flexible hinge region; other site 375286005347 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 375286005348 putative switch regulator; other site 375286005349 non-specific DNA interactions [nucleotide binding]; other site 375286005350 DNA binding site [nucleotide binding] 375286005351 sequence specific DNA binding site [nucleotide binding]; other site 375286005352 putative cAMP binding site [chemical binding]; other site 375286005353 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 375286005354 4Fe-4S binding domain; Region: Fer4; cl02805 375286005355 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 375286005356 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 375286005357 tungstate ABC transporter binding protein WtpA; Region: tungstate_WtpA; TIGR03730 375286005358 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 375286005359 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 375286005360 Coenzyme A binding pocket [chemical binding]; other site 375286005361 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 375286005362 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 375286005363 N-terminal plug; other site 375286005364 ligand-binding site [chemical binding]; other site 375286005365 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 375286005366 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 375286005367 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 375286005368 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_like_4; cd06152 375286005369 homotrimer interaction site [polypeptide binding]; other site 375286005370 putative active site [active] 375286005371 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 375286005372 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 375286005373 active site 375286005374 FMN binding site [chemical binding]; other site 375286005375 substrate binding site [chemical binding]; other site 375286005376 homotetramer interface [polypeptide binding]; other site 375286005377 catalytic residue [active] 375286005378 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 375286005379 dimerization interface [polypeptide binding]; other site 375286005380 putative DNA binding site [nucleotide binding]; other site 375286005381 putative Zn2+ binding site [ion binding]; other site 375286005382 YqcI/YcgG family; Region: YqcI_YcgG; pfam08892 375286005383 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 375286005384 FOG: CBS domain [General function prediction only]; Region: COG0517 375286005385 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 375286005386 Low affinity iron permease; Region: Iron_permease; cl12096 375286005387 Competence-damaged protein; Region: CinA; pfam02464 375286005388 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 375286005389 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 375286005390 homodimer interface [polypeptide binding]; other site 375286005391 NAD binding pocket [chemical binding]; other site 375286005392 ATP binding pocket [chemical binding]; other site 375286005393 Mg binding site [ion binding]; other site 375286005394 active-site loop [active] 375286005395 Cupin domain; Region: Cupin_2; cl17218 375286005396 Helix-turn-helix domain; Region: HTH_18; pfam12833 375286005397 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375286005398 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 375286005399 putative substrate translocation pore; other site 375286005400 Major Facilitator Superfamily; Region: MFS_1; pfam07690 375286005401 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 375286005402 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 375286005403 dimer interface [polypeptide binding]; other site 375286005404 phosphorylation site [posttranslational modification] 375286005405 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286005406 ATP binding site [chemical binding]; other site 375286005407 Mg2+ binding site [ion binding]; other site 375286005408 G-X-G motif; other site 375286005409 Response regulator receiver domain; Region: Response_reg; pfam00072 375286005410 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286005411 active site 375286005412 phosphorylation site [posttranslational modification] 375286005413 intermolecular recognition site; other site 375286005414 dimerization interface [polypeptide binding]; other site 375286005415 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 375286005416 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286005417 dimer interface [polypeptide binding]; other site 375286005418 conserved gate region; other site 375286005419 putative PBP binding loops; other site 375286005420 ABC-ATPase subunit interface; other site 375286005421 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286005422 dimer interface [polypeptide binding]; other site 375286005423 conserved gate region; other site 375286005424 putative PBP binding loops; other site 375286005425 ABC-ATPase subunit interface; other site 375286005426 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 375286005427 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 375286005428 Walker A/P-loop; other site 375286005429 ATP binding site [chemical binding]; other site 375286005430 Q-loop/lid; other site 375286005431 ABC transporter signature motif; other site 375286005432 Walker B; other site 375286005433 D-loop; other site 375286005434 H-loop/switch region; other site 375286005435 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 375286005436 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 375286005437 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 375286005438 putative active site [active] 375286005439 metal binding site [ion binding]; metal-binding site 375286005440 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 375286005441 Transglycosylase; Region: Transgly; pfam00912 375286005442 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 375286005443 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 375286005444 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 375286005445 dimer interface [polypeptide binding]; other site 375286005446 phosphorylation site [posttranslational modification] 375286005447 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286005448 ATP binding site [chemical binding]; other site 375286005449 Mg2+ binding site [ion binding]; other site 375286005450 G-X-G motif; other site 375286005451 Response regulator receiver domain; Region: Response_reg; pfam00072 375286005452 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286005453 active site 375286005454 phosphorylation site [posttranslational modification] 375286005455 intermolecular recognition site; other site 375286005456 dimerization interface [polypeptide binding]; other site 375286005457 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286005458 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286005459 metal binding site [ion binding]; metal-binding site 375286005460 active site 375286005461 I-site; other site 375286005462 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286005463 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286005464 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 375286005465 putative effector binding pocket; other site 375286005466 dimerization interface [polypeptide binding]; other site 375286005467 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 375286005468 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 375286005469 hydrophobic ligand binding site; other site 375286005470 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 375286005471 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 375286005472 putative ligand binding site [chemical binding]; other site 375286005473 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 375286005474 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 375286005475 FMN-binding pocket [chemical binding]; other site 375286005476 flavin binding motif; other site 375286005477 phosphate binding motif [ion binding]; other site 375286005478 beta-alpha-beta structure motif; other site 375286005479 NAD binding pocket [chemical binding]; other site 375286005480 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 375286005481 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 375286005482 catalytic loop [active] 375286005483 iron binding site [ion binding]; other site 375286005484 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 375286005485 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 375286005486 [2Fe-2S] cluster binding site [ion binding]; other site 375286005487 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 375286005488 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 375286005489 hydrophobic ligand binding site; other site 375286005490 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 375286005491 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 375286005492 putative C-terminal domain interface [polypeptide binding]; other site 375286005493 putative GSH binding site (G-site) [chemical binding]; other site 375286005494 putative dimer interface [polypeptide binding]; other site 375286005495 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 375286005496 putative N-terminal domain interface [polypeptide binding]; other site 375286005497 putative dimer interface [polypeptide binding]; other site 375286005498 putative substrate binding pocket (H-site) [chemical binding]; other site 375286005499 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 375286005500 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 375286005501 Walker A/P-loop; other site 375286005502 ATP binding site [chemical binding]; other site 375286005503 Q-loop/lid; other site 375286005504 ABC transporter signature motif; other site 375286005505 Walker B; other site 375286005506 D-loop; other site 375286005507 H-loop/switch region; other site 375286005508 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 375286005509 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375286005510 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 375286005511 TM-ABC transporter signature motif; other site 375286005512 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 375286005513 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375286005514 TM-ABC transporter signature motif; other site 375286005515 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 375286005516 active site 375286005517 catalytic residues [active] 375286005518 metal binding site [ion binding]; metal-binding site 375286005519 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 375286005520 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 375286005521 Protein export membrane protein; Region: SecD_SecF; cl14618 375286005522 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 375286005523 Protein export membrane protein; Region: SecD_SecF; cl14618 375286005524 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 375286005525 HlyD family secretion protein; Region: HlyD_3; pfam13437 375286005526 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 375286005527 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 375286005528 nucleoside/Zn binding site; other site 375286005529 dimer interface [polypeptide binding]; other site 375286005530 catalytic motif [active] 375286005531 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 375286005532 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 375286005533 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 375286005534 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286005535 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286005536 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 375286005537 dimerization interface [polypeptide binding]; other site 375286005538 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 375286005539 E-class dimer interface [polypeptide binding]; other site 375286005540 P-class dimer interface [polypeptide binding]; other site 375286005541 active site 375286005542 Cu2+ binding site [ion binding]; other site 375286005543 Zn2+ binding site [ion binding]; other site 375286005544 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 375286005545 Staphylococcal nuclease homologues; Region: SNc; smart00318 375286005546 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 375286005547 Catalytic site; other site 375286005548 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 375286005549 malate:quinone oxidoreductase; Validated; Region: PRK05257 375286005550 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 375286005551 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 375286005552 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 375286005553 Coenzyme A binding pocket [chemical binding]; other site 375286005554 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 375286005555 TPR motif; other site 375286005556 TPR repeat; Region: TPR_11; pfam13414 375286005557 binding surface 375286005558 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 375286005559 Hemerythrin-like domain; Region: Hr-like; cd12108 375286005560 Fe binding site [ion binding]; other site 375286005561 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 375286005562 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 375286005563 DEAD/DEAH box helicase; Region: DEAD; pfam00270 375286005564 ATP binding site [chemical binding]; other site 375286005565 DEAD_2; Region: DEAD_2; pfam06733 375286005566 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 375286005567 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 375286005568 CoenzymeA binding site [chemical binding]; other site 375286005569 subunit interaction site [polypeptide binding]; other site 375286005570 PHB binding site; other site 375286005571 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 375286005572 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 375286005573 Surface antigen; Region: Bac_surface_Ag; pfam01103 375286005574 haemagglutination activity domain; Region: Haemagg_act; pfam05860 375286005575 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 375286005576 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 375286005577 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 375286005578 AAA domain; Region: AAA_22; pfam13401 375286005579 YHS domain; Region: YHS; pfam04945 375286005580 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 375286005581 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 375286005582 Soluble P-type ATPase [General function prediction only]; Region: COG4087 375286005583 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 375286005584 Outer membrane efflux protein; Region: OEP; pfam02321 375286005585 Outer membrane efflux protein; Region: OEP; pfam02321 375286005586 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 375286005587 HlyD family secretion protein; Region: HlyD_3; pfam13437 375286005588 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 375286005589 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 375286005590 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 375286005591 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 375286005592 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 375286005593 dimerization interface [polypeptide binding]; other site 375286005594 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 375286005595 dimer interface [polypeptide binding]; other site 375286005596 phosphorylation site [posttranslational modification] 375286005597 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286005598 ATP binding site [chemical binding]; other site 375286005599 G-X-G motif; other site 375286005600 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 375286005601 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286005602 active site 375286005603 phosphorylation site [posttranslational modification] 375286005604 intermolecular recognition site; other site 375286005605 dimerization interface [polypeptide binding]; other site 375286005606 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 375286005607 DNA binding site [nucleotide binding] 375286005608 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 375286005609 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 375286005610 Multicopper oxidase; Region: Cu-oxidase; pfam00394 375286005611 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 375286005612 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 375286005613 CopC domain; Region: CopC; pfam04234 375286005614 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 375286005615 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 375286005616 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 375286005617 Ligand binding site; other site 375286005618 Putative Catalytic site; other site 375286005619 DXD motif; other site 375286005620 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 375286005621 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 375286005622 HlyD family secretion protein; Region: HlyD_3; pfam13437 375286005623 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 375286005624 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 375286005625 EamA-like transporter family; Region: EamA; pfam00892 375286005626 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 375286005627 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 375286005628 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 375286005629 DNA binding site [nucleotide binding] 375286005630 dimer interface [polypeptide binding]; other site 375286005631 active site 375286005632 Int/Topo IB signature motif; other site 375286005633 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 375286005634 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 375286005635 Walker A motif; other site 375286005636 ATP binding site [chemical binding]; other site 375286005637 Walker B motif; other site 375286005638 arginine finger; other site 375286005639 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 375286005640 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 375286005641 active site 375286005642 catalytic triad [active] 375286005643 Protein of unknown function (Hypoth_ymh); Region: Hypoth_Ymh; pfam09509 375286005644 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 375286005645 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 375286005646 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 375286005647 putative mercury resistance protein; Provisional; Region: PRK13747 375286005648 transcriptional regulator MerD; Provisional; Region: PRK13749 375286005649 Helix-Turn-Helix DNA binding domain of the MerD transcription regulator; Region: HTH_MerD; cd01111 375286005650 DNA binding residues [nucleotide binding] 375286005651 putative dimer interface [polypeptide binding]; other site 375286005652 putative mercuric reductase; Provisional; Region: PRK13748 375286005653 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 375286005654 metal-binding site [ion binding] 375286005655 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 375286005656 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 375286005657 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 375286005658 putative mercury transport protein MerC; Provisional; Region: PRK13755 375286005659 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 375286005660 metal-binding site [ion binding] 375286005661 putative mercuric transport protein; Provisional; Region: PRK13751 375286005662 Alkylmercury lyase; Region: MerB; pfam03243 375286005663 putative transcriptional regulator MerR; Provisional; Region: PRK13752 375286005664 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 375286005665 DNA binding residues [nucleotide binding] 375286005666 dimer interface [polypeptide binding]; other site 375286005667 mercury binding site [ion binding]; other site 375286005668 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 375286005669 DNA binding site [nucleotide binding] 375286005670 dimer interface [polypeptide binding]; other site 375286005671 active site 375286005672 Int/Topo IB signature motif; other site 375286005673 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 375286005674 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 375286005675 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 375286005676 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286005677 active site 375286005678 phosphorylation site [posttranslational modification] 375286005679 intermolecular recognition site; other site 375286005680 dimerization interface [polypeptide binding]; other site 375286005681 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 375286005682 DNA binding site [nucleotide binding] 375286005683 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 375286005684 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 375286005685 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 375286005686 putative metal dependent hydrolase; Provisional; Region: PRK11598 375286005687 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 375286005688 Sulfatase; Region: Sulfatase; pfam00884 375286005689 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 375286005690 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 375286005691 Ligand binding site; other site 375286005692 Putative Catalytic site; other site 375286005693 DXD motif; other site 375286005694 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 375286005695 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 375286005696 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 375286005697 MgtC family; Region: MgtC; pfam02308 375286005698 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 375286005699 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 375286005700 Nitrogen regulatory protein P-II; Region: P-II; smart00938 375286005701 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 375286005702 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 375286005703 HlyD family secretion protein; Region: HlyD_3; pfam13437 375286005704 Outer membrane efflux protein; Region: OEP; pfam02321 375286005705 Outer membrane efflux protein; Region: OEP; pfam02321 375286005706 AAA domain; Region: AAA_22; pfam13401 375286005707 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 375286005708 putative assembly protein; Region: PHA00350 375286005709 Zonular occludens toxin (Zot); Region: Zot; cl17485 375286005710 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 375286005711 RNA polymerase sigma factor SigL; Provisional; Region: PRK09645 375286005712 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 375286005713 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 375286005714 sequence-specific DNA binding site [nucleotide binding]; other site 375286005715 salt bridge; other site 375286005716 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 375286005717 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 375286005718 active site 375286005719 SEC-C motif; Region: SEC-C; pfam02810 375286005720 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 375286005721 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 375286005722 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 375286005723 HlyD family secretion protein; Region: HlyD_3; pfam13437 375286005724 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 375286005725 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 375286005726 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 375286005727 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 375286005728 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 375286005729 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 375286005730 DNA binding residues [nucleotide binding] 375286005731 dimer interface [polypeptide binding]; other site 375286005732 putative metal binding site [ion binding]; other site 375286005733 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 375286005734 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 375286005735 active site 375286005736 phosphorylation site [posttranslational modification] 375286005737 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 375286005738 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 375286005739 dimer interface [polypeptide binding]; other site 375286005740 active site 375286005741 catalytic residue [active] 375286005742 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 375286005743 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 375286005744 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 375286005745 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 375286005746 Zn2+ binding site [ion binding]; other site 375286005747 Mg2+ binding site [ion binding]; other site 375286005748 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 375286005749 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 375286005750 putative ligand binding site [chemical binding]; other site 375286005751 HEAT repeats; Region: HEAT_2; pfam13646 375286005752 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 375286005753 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375286005754 TM-ABC transporter signature motif; other site 375286005755 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 375286005756 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 375286005757 TM-ABC transporter signature motif; other site 375286005758 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 375286005759 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 375286005760 Walker A/P-loop; other site 375286005761 ATP binding site [chemical binding]; other site 375286005762 Q-loop/lid; other site 375286005763 ABC transporter signature motif; other site 375286005764 Walker B; other site 375286005765 D-loop; other site 375286005766 H-loop/switch region; other site 375286005767 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 375286005768 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 375286005769 Walker A/P-loop; other site 375286005770 ATP binding site [chemical binding]; other site 375286005771 Q-loop/lid; other site 375286005772 ABC transporter signature motif; other site 375286005773 Walker B; other site 375286005774 D-loop; other site 375286005775 H-loop/switch region; other site 375286005776 UreD urease accessory protein; Region: UreD; pfam01774 375286005777 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 375286005778 alpha-gamma subunit interface [polypeptide binding]; other site 375286005779 beta-gamma subunit interface [polypeptide binding]; other site 375286005780 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 375286005781 gamma-beta subunit interface [polypeptide binding]; other site 375286005782 alpha-beta subunit interface [polypeptide binding]; other site 375286005783 urease subunit alpha; Reviewed; Region: ureC; PRK13207 375286005784 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 375286005785 subunit interactions [polypeptide binding]; other site 375286005786 active site 375286005787 flap region; other site 375286005788 urease accessory protein UreE; Provisional; Region: PRK14113 375286005789 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 375286005790 dimer interface [polypeptide binding]; other site 375286005791 catalytic residues [active] 375286005792 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 375286005793 UreF; Region: UreF; pfam01730 375286005794 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 375286005795 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 375286005796 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 375286005797 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286005798 active site 375286005799 phosphorylation site [posttranslational modification] 375286005800 intermolecular recognition site; other site 375286005801 dimerization interface [polypeptide binding]; other site 375286005802 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 375286005803 DNA binding site [nucleotide binding] 375286005804 sensor protein KdpD; Provisional; Region: PRK10490 375286005805 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 375286005806 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 375286005807 Ligand Binding Site [chemical binding]; other site 375286005808 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 375286005809 GAF domain; Region: GAF_3; pfam13492 375286005810 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 375286005811 dimer interface [polypeptide binding]; other site 375286005812 phosphorylation site [posttranslational modification] 375286005813 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286005814 ATP binding site [chemical binding]; other site 375286005815 Mg2+ binding site [ion binding]; other site 375286005816 G-X-G motif; other site 375286005817 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 375286005818 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 375286005819 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 375286005820 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 375286005821 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 375286005822 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 375286005823 putative metal binding site [ion binding]; other site 375286005824 putative homodimer interface [polypeptide binding]; other site 375286005825 putative homotetramer interface [polypeptide binding]; other site 375286005826 putative homodimer-homodimer interface [polypeptide binding]; other site 375286005827 putative allosteric switch controlling residues; other site 375286005828 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 375286005829 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 375286005830 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 375286005831 dimerization interface [polypeptide binding]; other site 375286005832 DPS ferroxidase diiron center [ion binding]; other site 375286005833 ion pore; other site 375286005834 Predicted esterase [General function prediction only]; Region: COG0400 375286005835 putative hydrolase; Provisional; Region: PRK11460 375286005836 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375286005837 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 375286005838 Walker A/P-loop; other site 375286005839 ATP binding site [chemical binding]; other site 375286005840 Q-loop/lid; other site 375286005841 ABC transporter signature motif; other site 375286005842 Walker B; other site 375286005843 D-loop; other site 375286005844 H-loop/switch region; other site 375286005845 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286005846 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286005847 metal binding site [ion binding]; metal-binding site 375286005848 active site 375286005849 I-site; other site 375286005850 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 375286005851 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 375286005852 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 375286005853 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 375286005854 Protein of unknown function (DUF2636); Region: DUF2636; cl11897 375286005855 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 375286005856 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 375286005857 G1 box; other site 375286005858 GTP/Mg2+ binding site [chemical binding]; other site 375286005859 Switch I region; other site 375286005860 G2 box; other site 375286005861 G3 box; other site 375286005862 Switch II region; other site 375286005863 G4 box; other site 375286005864 G5 box; other site 375286005865 Nucleoside recognition; Region: Gate; pfam07670 375286005866 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 375286005867 Nucleoside recognition; Region: Gate; pfam07670 375286005868 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 375286005869 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 375286005870 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 375286005871 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375286005872 WHG domain; Region: WHG; pfam13305 375286005873 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 375286005874 SnoaL-like domain; Region: SnoaL_3; pfam13474 375286005875 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 375286005876 putative dimer interface [polypeptide binding]; other site 375286005877 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 375286005878 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 375286005879 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 375286005880 putative hydrophobic ligand binding site [chemical binding]; other site 375286005881 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 375286005882 Predicted transcriptional regulators [Transcription]; Region: COG1695 375286005883 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 375286005884 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 375286005885 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 375286005886 FAD binding pocket [chemical binding]; other site 375286005887 FAD binding motif [chemical binding]; other site 375286005888 phosphate binding motif [ion binding]; other site 375286005889 NAD binding pocket [chemical binding]; other site 375286005890 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 375286005891 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 375286005892 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 375286005893 Protein of unknown function, DUF606; Region: DUF606; pfam04657 375286005894 YcaO domain protein; Region: TIGR03549 375286005895 OsmC-like protein; Region: OsmC; pfam02566 375286005896 YcaO-like family; Region: YcaO; pfam02624 375286005897 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286005898 transcriptional activator TtdR; Provisional; Region: PRK09801 375286005899 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 375286005900 putative effector binding pocket; other site 375286005901 putative dimerization interface [polypeptide binding]; other site 375286005902 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 375286005903 Cytochrome c; Region: Cytochrom_C; pfam00034 375286005904 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 375286005905 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 375286005906 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 375286005907 putative substrate translocation pore; other site 375286005908 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286005909 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286005910 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 375286005911 putative effector binding pocket; other site 375286005912 dimerization interface [polypeptide binding]; other site 375286005913 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 375286005914 NADH(P)-binding; Region: NAD_binding_10; pfam13460 375286005915 NAD binding site [chemical binding]; other site 375286005916 putative active site [active] 375286005917 substrate binding site [chemical binding]; other site 375286005918 Mu-like prophage protein [General function prediction only]; Region: COG3941 375286005919 GTP cyclohydrolase I; Provisional; Region: PLN03044 375286005920 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 375286005921 active site 375286005922 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375286005923 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 375286005924 NAD(P) binding site [chemical binding]; other site 375286005925 active site 375286005926 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286005927 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286005928 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 375286005929 putative effector binding pocket; other site 375286005930 dimerization interface [polypeptide binding]; other site 375286005931 DTW domain; Region: DTW; cl01221 375286005932 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 375286005933 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 375286005934 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 375286005935 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375286005936 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 375286005937 Major Facilitator Superfamily; Region: MFS_1; pfam07690 375286005938 putative substrate translocation pore; other site 375286005939 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 375286005940 Methyltransferase domain; Region: Methyltransf_23; pfam13489 375286005941 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 375286005942 S-adenosylmethionine binding site [chemical binding]; other site 375286005943 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 375286005944 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 375286005945 putative substrate translocation pore; other site 375286005946 Cupin; Region: Cupin_6; pfam12852 375286005947 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375286005948 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 375286005949 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375286005950 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286005951 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286005952 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 375286005953 putative effector binding pocket; other site 375286005954 putative dimerization interface [polypeptide binding]; other site 375286005955 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 375286005956 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 375286005957 putative NAD(P) binding site [chemical binding]; other site 375286005958 putative substrate binding site [chemical binding]; other site 375286005959 catalytic Zn binding site [ion binding]; other site 375286005960 structural Zn binding site [ion binding]; other site 375286005961 dimer interface [polypeptide binding]; other site 375286005962 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 375286005963 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 375286005964 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 375286005965 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 375286005966 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 375286005967 active site 375286005968 metal binding site [ion binding]; metal-binding site 375286005969 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 375286005970 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 375286005971 S-adenosylmethionine binding site [chemical binding]; other site 375286005972 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286005973 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286005974 metal binding site [ion binding]; metal-binding site 375286005975 active site 375286005976 I-site; other site 375286005977 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 375286005978 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 375286005979 active site 375286005980 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 375286005981 MarR family; Region: MarR_2; pfam12802 375286005982 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 375286005983 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 375286005984 dimer interface [polypeptide binding]; other site 375286005985 TPP-binding site [chemical binding]; other site 375286005986 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 375286005987 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 375286005988 SmpB-tmRNA interface; other site 375286005989 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 375286005990 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_15; cd04673 375286005991 nudix motif; other site 375286005992 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; cl17810 375286005993 Uncharacterized conserved protein, YhbC family [Function unknown]; Region: COG0782 375286005994 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 375286005995 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286005996 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 375286005997 active site 375286005998 phosphorylation site [posttranslational modification] 375286005999 intermolecular recognition site; other site 375286006000 dimerization interface [polypeptide binding]; other site 375286006001 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 375286006002 DNA binding residues [nucleotide binding] 375286006003 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 375286006004 Na binding site [ion binding]; other site 375286006005 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 375286006006 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 375286006007 dimer interface [polypeptide binding]; other site 375286006008 phosphorylation site [posttranslational modification] 375286006009 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286006010 ATP binding site [chemical binding]; other site 375286006011 Mg2+ binding site [ion binding]; other site 375286006012 G-X-G motif; other site 375286006013 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 375286006014 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286006015 active site 375286006016 phosphorylation site [posttranslational modification] 375286006017 intermolecular recognition site; other site 375286006018 dimerization interface [polypeptide binding]; other site 375286006019 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 375286006020 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 375286006021 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 375286006022 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 375286006023 dimerization interface [polypeptide binding]; other site 375286006024 putative DNA binding site [nucleotide binding]; other site 375286006025 putative Zn2+ binding site [ion binding]; other site 375286006026 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 375286006027 putative hydrophobic ligand binding site [chemical binding]; other site 375286006028 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 375286006029 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 375286006030 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 375286006031 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 375286006032 active site residue [active] 375286006033 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 375286006034 AsmA family; Region: AsmA; pfam05170 375286006035 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 375286006036 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 375286006037 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 375286006038 FMN binding site [chemical binding]; other site 375286006039 substrate binding site [chemical binding]; other site 375286006040 putative catalytic residue [active] 375286006041 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 375286006042 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 375286006043 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 375286006044 HSP70 interaction site [polypeptide binding]; other site 375286006045 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 375286006046 substrate binding site [polypeptide binding]; other site 375286006047 dimer interface [polypeptide binding]; other site 375286006048 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 375286006049 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 375286006050 Rrf2 family protein; Region: rrf2_super; TIGR00738 375286006051 Transcriptional regulator; Region: Rrf2; pfam02082 375286006052 Transcriptional regulator; Region: Rrf2; cl17282 375286006053 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 375286006054 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 375286006055 Uncharacterized conserved protein [Function unknown]; Region: COG1262 375286006056 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 375286006057 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 375286006058 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 375286006059 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 375286006060 Uncharacterized conserved protein [Function unknown]; Region: COG4544 375286006061 DNA Polymerase Y-family; Region: PolY_like; cd03468 375286006062 active site 375286006063 DNA binding site [nucleotide binding] 375286006064 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 375286006065 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 375286006066 putative active site [active] 375286006067 putative PHP Thumb interface [polypeptide binding]; other site 375286006068 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 375286006069 generic binding surface I; other site 375286006070 generic binding surface II; other site 375286006071 Cupin domain; Region: Cupin_2; pfam07883 375286006072 Helix-turn-helix domain; Region: HTH_18; pfam12833 375286006073 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375286006074 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 375286006075 EamA-like transporter family; Region: EamA; pfam00892 375286006076 EamA-like transporter family; Region: EamA; pfam00892 375286006077 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 375286006078 Anti-sigma-K factor rskA; Region: RskA; pfam10099 375286006079 RNA polymerase sigma factor; Provisional; Region: PRK12537 375286006080 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286006081 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 375286006082 DNA binding residues [nucleotide binding] 375286006083 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 375286006084 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286006085 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286006086 LysR substrate binding domain; Region: LysR_substrate; pfam03466 375286006087 dimerization interface [polypeptide binding]; other site 375286006088 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 375286006089 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 375286006090 putative NAD(P) binding site [chemical binding]; other site 375286006091 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 375286006092 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286006093 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 375286006094 DNA binding residues [nucleotide binding] 375286006095 haemagglutination activity domain; Region: Haemagg_act; pfam05860 375286006096 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 375286006097 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 375286006098 FecR protein; Region: FecR; pfam04773 375286006099 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 375286006100 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286006101 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 375286006102 DNA binding residues [nucleotide binding] 375286006103 Secretin and TonB N terminus short domain; Region: STN; smart00965 375286006104 Uncharacterized conserved protein [Function unknown]; Region: COG3025 375286006105 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 375286006106 putative active site [active] 375286006107 putative metal binding residues [ion binding]; other site 375286006108 signature motif; other site 375286006109 putative triphosphate binding site [ion binding]; other site 375286006110 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 375286006111 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 375286006112 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 375286006113 N-terminal plug; other site 375286006114 ligand-binding site [chemical binding]; other site 375286006115 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 375286006116 Isochorismatase family; Region: Isochorismatase; pfam00857 375286006117 catalytic triad [active] 375286006118 dimer interface [polypeptide binding]; other site 375286006119 conserved cis-peptide bond; other site 375286006120 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 375286006121 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 375286006122 DNA binding residues [nucleotide binding] 375286006123 dimer interface [polypeptide binding]; other site 375286006124 [2Fe-2S] cluster binding site [ion binding]; other site 375286006125 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 375286006126 Predicted flavoprotein [General function prediction only]; Region: COG0431 375286006127 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 375286006128 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 375286006129 HlyD family secretion protein; Region: HlyD_3; pfam13437 375286006130 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 375286006131 Fusaric acid resistance protein family; Region: FUSC; pfam04632 375286006132 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 375286006133 MarR family; Region: MarR_2; cl17246 375286006134 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 375286006135 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 375286006136 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 375286006137 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 375286006138 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 375286006139 TrkA-N domain; Region: TrkA_N; pfam02254 375286006140 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 375286006141 EamA-like transporter family; Region: EamA; pfam00892 375286006142 EamA-like transporter family; Region: EamA; pfam00892 375286006143 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 375286006144 dimer interface [polypeptide binding]; other site 375286006145 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 375286006146 metal binding site [ion binding]; metal-binding site 375286006147 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 375286006148 active site 1 [active] 375286006149 dimer interface [polypeptide binding]; other site 375286006150 hexamer interface [polypeptide binding]; other site 375286006151 active site 2 [active] 375286006152 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 375286006153 MarR family; Region: MarR_2; pfam12802 375286006154 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 375286006155 Chromate transporter; Region: Chromate_transp; pfam02417 375286006156 malate synthase A; Region: malate_syn_A; TIGR01344 375286006157 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 375286006158 active site 375286006159 isocitrate lyase; Provisional; Region: PRK15063 375286006160 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 375286006161 tetramer interface [polypeptide binding]; other site 375286006162 active site 375286006163 Mg2+/Mn2+ binding site [ion binding]; other site 375286006164 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 375286006165 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 375286006166 ATP binding site [chemical binding]; other site 375286006167 Mg++ binding site [ion binding]; other site 375286006168 motif III; other site 375286006169 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 375286006170 nucleotide binding region [chemical binding]; other site 375286006171 ATP-binding site [chemical binding]; other site 375286006172 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 375286006173 putative RNA binding site [nucleotide binding]; other site 375286006174 Methyltransferase domain; Region: Methyltransf_23; pfam13489 375286006175 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 375286006176 S-adenosylmethionine binding site [chemical binding]; other site 375286006177 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 375286006178 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 375286006179 HSP70 interaction site [polypeptide binding]; other site 375286006180 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 375286006181 substrate binding site [polypeptide binding]; other site 375286006182 dimer interface [polypeptide binding]; other site 375286006183 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 375286006184 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 375286006185 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 375286006186 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 375286006187 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 375286006188 RNA binding surface [nucleotide binding]; other site 375286006189 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 375286006190 active site 375286006191 uracil binding [chemical binding]; other site 375286006192 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 375286006193 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 375286006194 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286006195 homodimer interface [polypeptide binding]; other site 375286006196 catalytic residue [active] 375286006197 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 375286006198 Methyltransferase domain; Region: Methyltransf_31; pfam13847 375286006199 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 375286006200 S-adenosylmethionine binding site [chemical binding]; other site 375286006201 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 375286006202 Putative glucoamylase; Region: Glycoamylase; pfam10091 375286006203 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 375286006204 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 375286006205 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 375286006206 Protein of unknown function, DUF608; Region: DUF608; pfam04685 375286006207 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 375286006208 trimer interface [polypeptide binding]; other site 375286006209 putative Zn binding site [ion binding]; other site 375286006210 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 375286006211 Permease; Region: Permease; pfam02405 375286006212 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 375286006213 mce related protein; Region: MCE; pfam02470 375286006214 Uncharacterized conserved protein [Function unknown]; Region: COG4544 375286006215 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 375286006216 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286006217 active site 375286006218 phosphorylation site [posttranslational modification] 375286006219 intermolecular recognition site; other site 375286006220 dimerization interface [polypeptide binding]; other site 375286006221 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 375286006222 binding surface 375286006223 TPR motif; other site 375286006224 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 375286006225 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286006226 ATP binding site [chemical binding]; other site 375286006227 Mg2+ binding site [ion binding]; other site 375286006228 G-X-G motif; other site 375286006229 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 375286006230 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 375286006231 Walker A/P-loop; other site 375286006232 ATP binding site [chemical binding]; other site 375286006233 Q-loop/lid; other site 375286006234 ABC transporter signature motif; other site 375286006235 Walker B; other site 375286006236 D-loop; other site 375286006237 H-loop/switch region; other site 375286006238 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286006239 dimer interface [polypeptide binding]; other site 375286006240 conserved gate region; other site 375286006241 putative PBP binding loops; other site 375286006242 ABC-ATPase subunit interface; other site 375286006243 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 375286006244 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 375286006245 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 375286006246 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 375286006247 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 375286006248 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 375286006249 [4Fe-4S] binding site [ion binding]; other site 375286006250 molybdopterin cofactor binding site; other site 375286006251 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 375286006252 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 375286006253 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 375286006254 molybdopterin cofactor binding site; other site 375286006255 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 375286006256 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 375286006257 4Fe-4S binding domain; Region: Fer4; pfam00037 375286006258 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 375286006259 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 375286006260 4Fe-4S binding domain; Region: Fer4; pfam00037 375286006261 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 375286006262 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 375286006263 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 375286006264 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 375286006265 Domain of unknown function DUF59; Region: DUF59; pfam01883 375286006266 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 375286006267 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 375286006268 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 375286006269 FeS/SAM binding site; other site 375286006270 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 375286006271 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 375286006272 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 375286006273 GTP binding site; other site 375286006274 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 375286006275 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 375286006276 dimer interface [polypeptide binding]; other site 375286006277 putative functional site; other site 375286006278 putative MPT binding site; other site 375286006279 HDOD domain; Region: HDOD; pfam08668 375286006280 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 375286006281 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 375286006282 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 375286006283 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 375286006284 active site 375286006285 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 375286006286 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 375286006287 Coenzyme A binding pocket [chemical binding]; other site 375286006288 PilZ domain; Region: PilZ; cl01260 375286006289 DNA polymerase III subunit delta'; Validated; Region: PRK06964 375286006290 DNA polymerase III subunit delta'; Validated; Region: PRK08485 375286006291 thymidylate kinase; Validated; Region: tmk; PRK00698 375286006292 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 375286006293 TMP-binding site; other site 375286006294 ATP-binding site [chemical binding]; other site 375286006295 YceG-like family; Region: YceG; pfam02618 375286006296 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 375286006297 dimerization interface [polypeptide binding]; other site 375286006298 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 375286006299 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 375286006300 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 375286006301 NRDE protein; Region: NRDE; pfam05742 375286006302 hypothetical protein; Provisional; Region: PRK06194 375286006303 classical (c) SDRs; Region: SDR_c; cd05233 375286006304 NAD(P) binding site [chemical binding]; other site 375286006305 active site 375286006306 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 375286006307 CoenzymeA binding site [chemical binding]; other site 375286006308 subunit interaction site [polypeptide binding]; other site 375286006309 PHB binding site; other site 375286006310 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 375286006311 putative substrate translocation pore; other site 375286006312 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 375286006313 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375286006314 ATP-grasp domain; Region: ATP-grasp; pfam02222 375286006315 PAS domain S-box; Region: sensory_box; TIGR00229 375286006316 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 375286006317 putative active site [active] 375286006318 heme pocket [chemical binding]; other site 375286006319 PAS fold; Region: PAS_4; pfam08448 375286006320 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 375286006321 putative active site [active] 375286006322 heme pocket [chemical binding]; other site 375286006323 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286006324 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286006325 metal binding site [ion binding]; metal-binding site 375286006326 active site 375286006327 I-site; other site 375286006328 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 375286006329 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 375286006330 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 375286006331 L-aspartate oxidase; Provisional; Region: PRK09077 375286006332 L-aspartate oxidase; Provisional; Region: PRK06175 375286006333 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 375286006334 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 375286006335 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 375286006336 Autotransporter beta-domain; Region: Autotransporter; smart00869 375286006337 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 375286006338 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 375286006339 dimerization interface [polypeptide binding]; other site 375286006340 active site 375286006341 quinolinate synthetase; Provisional; Region: PRK09375 375286006342 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375286006343 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 375286006344 Walker A/P-loop; other site 375286006345 ATP binding site [chemical binding]; other site 375286006346 Q-loop/lid; other site 375286006347 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 375286006348 ABC transporter; Region: ABC_tran_2; pfam12848 375286006349 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 375286006350 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 375286006351 dimer interface [polypeptide binding]; other site 375286006352 catalytic triad [active] 375286006353 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 375286006354 TAP-like protein; Region: Abhydrolase_4; pfam08386 375286006355 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 375286006356 PGAP1-like protein; Region: PGAP1; pfam07819 375286006357 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 375286006358 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375286006359 DNA-binding site [nucleotide binding]; DNA binding site 375286006360 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 375286006361 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286006362 homodimer interface [polypeptide binding]; other site 375286006363 catalytic residue [active] 375286006364 benzoate transporter; Region: benE; TIGR00843 375286006365 Benzoate membrane transport protein; Region: BenE; pfam03594 375286006366 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 375286006367 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 375286006368 catalytic residue [active] 375286006369 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 375286006370 nucleoside/Zn binding site; other site 375286006371 dimer interface [polypeptide binding]; other site 375286006372 catalytic motif [active] 375286006373 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 375286006374 active site 375286006375 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 375286006376 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 375286006377 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 375286006378 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 375286006379 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 375286006380 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 375286006381 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 375286006382 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 375286006383 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375286006384 Walker A/P-loop; other site 375286006385 ATP binding site [chemical binding]; other site 375286006386 Q-loop/lid; other site 375286006387 ABC transporter signature motif; other site 375286006388 Walker B; other site 375286006389 D-loop; other site 375286006390 H-loop/switch region; other site 375286006391 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 375286006392 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 375286006393 Walker A/P-loop; other site 375286006394 ATP binding site [chemical binding]; other site 375286006395 Q-loop/lid; other site 375286006396 ABC transporter signature motif; other site 375286006397 Walker B; other site 375286006398 D-loop; other site 375286006399 H-loop/switch region; other site 375286006400 short chain dehydrogenase; Provisional; Region: PRK12937 375286006401 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 375286006402 NADP binding site [chemical binding]; other site 375286006403 homodimer interface [polypeptide binding]; other site 375286006404 active site 375286006405 substrate binding site [chemical binding]; other site 375286006406 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286006407 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286006408 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 375286006409 putative effector binding pocket; other site 375286006410 putative dimerization interface [polypeptide binding]; other site 375286006411 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 375286006412 apolar tunnel; other site 375286006413 heme binding site [chemical binding]; other site 375286006414 dimerization interface [polypeptide binding]; other site 375286006415 azurin; Region: azurin; TIGR02695 375286006416 RNA polymerase sigma factor; Provisional; Region: PRK12528 375286006417 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286006418 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 375286006419 DNA binding residues [nucleotide binding] 375286006420 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 375286006421 FecR protein; Region: FecR; pfam04773 375286006422 Secretin and TonB N terminus short domain; Region: STN; smart00965 375286006423 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 375286006424 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 375286006425 N-terminal plug; other site 375286006426 ligand-binding site [chemical binding]; other site 375286006427 Secretin and TonB N terminus short domain; Region: STN; smart00965 375286006428 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 375286006429 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 375286006430 N-terminal plug; other site 375286006431 ligand-binding site [chemical binding]; other site 375286006432 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 375286006433 FecR protein; Region: FecR; pfam04773 375286006434 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 375286006435 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286006436 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 375286006437 DNA binding residues [nucleotide binding] 375286006438 Secretin and TonB N terminus short domain; Region: STN; smart00965 375286006439 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 375286006440 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 375286006441 N-terminal plug; other site 375286006442 ligand-binding site [chemical binding]; other site 375286006443 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 375286006444 FecR protein; Region: FecR; pfam04773 375286006445 RNA polymerase sigma factor; Provisional; Region: PRK12528 375286006446 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286006447 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 375286006448 DNA binding residues [nucleotide binding] 375286006449 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 375286006450 Part of AAA domain; Region: AAA_19; pfam13245 375286006451 AAA domain; Region: AAA_12; pfam13087 375286006452 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 375286006453 GMP synthase; Reviewed; Region: guaA; PRK00074 375286006454 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 375286006455 AMP/PPi binding site [chemical binding]; other site 375286006456 candidate oxyanion hole; other site 375286006457 catalytic triad [active] 375286006458 potential glutamine specificity residues [chemical binding]; other site 375286006459 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 375286006460 ATP Binding subdomain [chemical binding]; other site 375286006461 Ligand Binding sites [chemical binding]; other site 375286006462 Dimerization subdomain; other site 375286006463 3-oxoacyl-acyl carrier protein synthase; Provisional; Region: PTZ00050 375286006464 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 375286006465 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 375286006466 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 375286006467 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 375286006468 active site 375286006469 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 375286006470 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 375286006471 putative coenzyme Q binding site [chemical binding]; other site 375286006472 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 375286006473 SmpB-tmRNA interface; other site 375286006474 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 375286006475 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 375286006476 phosphoenolpyruvate synthase; Validated; Region: PRK06464 375286006477 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 375286006478 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 375286006479 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 375286006480 PEP synthetase regulatory protein; Provisional; Region: PRK05339 375286006481 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 375286006482 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 375286006483 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 375286006484 RNA/DNA hybrid binding site [nucleotide binding]; other site 375286006485 active site 375286006486 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 375286006487 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 375286006488 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 375286006489 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 375286006490 active site 375286006491 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 375286006492 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 375286006493 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 375286006494 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 375286006495 trimer interface [polypeptide binding]; other site 375286006496 active site 375286006497 UDP-GlcNAc binding site [chemical binding]; other site 375286006498 lipid binding site [chemical binding]; lipid-binding site 375286006499 periplasmic chaperone; Provisional; Region: PRK10780 375286006500 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 375286006501 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 375286006502 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 375286006503 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 375286006504 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 375286006505 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 375286006506 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 375286006507 Surface antigen; Region: Bac_surface_Ag; pfam01103 375286006508 zinc metallopeptidase RseP; Provisional; Region: PRK10779 375286006509 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 375286006510 active site 375286006511 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 375286006512 protein binding site [polypeptide binding]; other site 375286006513 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 375286006514 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 375286006515 putative substrate binding region [chemical binding]; other site 375286006516 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 375286006517 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 375286006518 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 375286006519 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 375286006520 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 375286006521 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 375286006522 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 375286006523 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 375286006524 catalytic residue [active] 375286006525 putative FPP diphosphate binding site; other site 375286006526 putative FPP binding hydrophobic cleft; other site 375286006527 dimer interface [polypeptide binding]; other site 375286006528 putative IPP diphosphate binding site; other site 375286006529 ribosome recycling factor; Reviewed; Region: frr; PRK00083 375286006530 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 375286006531 hinge region; other site 375286006532 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 375286006533 putative nucleotide binding site [chemical binding]; other site 375286006534 uridine monophosphate binding site [chemical binding]; other site 375286006535 homohexameric interface [polypeptide binding]; other site 375286006536 elongation factor Ts; Provisional; Region: tsf; PRK09377 375286006537 UBA/TS-N domain; Region: UBA; pfam00627 375286006538 Elongation factor TS; Region: EF_TS; pfam00889 375286006539 Elongation factor TS; Region: EF_TS; pfam00889 375286006540 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 375286006541 rRNA interaction site [nucleotide binding]; other site 375286006542 S8 interaction site; other site 375286006543 putative laminin-1 binding site; other site 375286006544 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 375286006545 active site 375286006546 PII uridylyl-transferase; Provisional; Region: PRK03059 375286006547 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 375286006548 metal binding triad; other site 375286006549 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 375286006550 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 375286006551 Zn2+ binding site [ion binding]; other site 375286006552 Mg2+ binding site [ion binding]; other site 375286006553 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 375286006554 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 375286006555 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 375286006556 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 375286006557 RNA binding surface [nucleotide binding]; other site 375286006558 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 375286006559 active site 375286006560 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 375286006561 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 375286006562 trimer interface [polypeptide binding]; other site 375286006563 eyelet of channel; other site 375286006564 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 375286006565 active site 375286006566 catalytic residues [active] 375286006567 metal binding site [ion binding]; metal-binding site 375286006568 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 375286006569 active site 375286006570 tetramer interface; other site 375286006571 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 375286006572 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 375286006573 nucleotide binding pocket [chemical binding]; other site 375286006574 K-X-D-G motif; other site 375286006575 catalytic site [active] 375286006576 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 375286006577 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 375286006578 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 375286006579 Dimer interface [polypeptide binding]; other site 375286006580 BRCT sequence motif; other site 375286006581 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 375286006582 FtsZ protein binding site [polypeptide binding]; other site 375286006583 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 375286006584 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 375286006585 Walker A/P-loop; other site 375286006586 ATP binding site [chemical binding]; other site 375286006587 Q-loop/lid; other site 375286006588 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 375286006589 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 375286006590 ABC transporter signature motif; other site 375286006591 Walker B; other site 375286006592 D-loop; other site 375286006593 H-loop/switch region; other site 375286006594 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 375286006595 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 375286006596 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286006597 homodimer interface [polypeptide binding]; other site 375286006598 catalytic residue [active] 375286006599 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 375286006600 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 375286006601 trimer interface [polypeptide binding]; other site 375286006602 active site 375286006603 substrate binding site [chemical binding]; other site 375286006604 CoA binding site [chemical binding]; other site 375286006605 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 375286006606 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 375286006607 ATP binding site [chemical binding]; other site 375286006608 Walker B motif; other site 375286006609 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 375286006610 ArsC family; Region: ArsC; pfam03960 375286006611 putative catalytic residues [active] 375286006612 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 375286006613 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 375286006614 metal binding site [ion binding]; metal-binding site 375286006615 dimer interface [polypeptide binding]; other site 375286006616 HemK family putative methylases; Region: hemK_fam; TIGR00536 375286006617 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 375286006618 S-adenosylmethionine binding site [chemical binding]; other site 375286006619 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 375286006620 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 375286006621 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 375286006622 ABC transporter; Region: ABC_tran_2; pfam12848 375286006623 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 375286006624 Rossmann-like domain; Region: Rossmann-like; pfam10727 375286006625 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 375286006626 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 375286006627 flagellar motor protein MotD; Reviewed; Region: PRK09038 375286006628 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 375286006629 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 375286006630 ligand binding site [chemical binding]; other site 375286006631 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 375286006632 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 375286006633 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 375286006634 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286006635 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 375286006636 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 375286006637 DNA binding residues [nucleotide binding] 375286006638 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 375286006639 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 375286006640 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14721 375286006641 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 375286006642 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 375286006643 FHIPEP family; Region: FHIPEP; pfam00771 375286006644 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 375286006645 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 375286006646 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 375286006647 chemotaxis regulator CheZ; Provisional; Region: PRK11166 375286006648 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 375286006649 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286006650 active site 375286006651 phosphorylation site [posttranslational modification] 375286006652 intermolecular recognition site; other site 375286006653 dimerization interface [polypeptide binding]; other site 375286006654 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 375286006655 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286006656 active site 375286006657 phosphorylation site [posttranslational modification] 375286006658 intermolecular recognition site; other site 375286006659 dimerization interface [polypeptide binding]; other site 375286006660 CheB methylesterase; Region: CheB_methylest; pfam01339 375286006661 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13487 375286006662 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 375286006663 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 375286006664 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 375286006665 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 375286006666 putative CheA interaction surface; other site 375286006667 chemotaxis protein CheA; Provisional; Region: PRK10547 375286006668 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 375286006669 putative binding surface; other site 375286006670 active site 375286006671 CheY binding; Region: CheY-binding; pfam09078 375286006672 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 375286006673 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286006674 ATP binding site [chemical binding]; other site 375286006675 Mg2+ binding site [ion binding]; other site 375286006676 G-X-G motif; other site 375286006677 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 375286006678 Response regulator receiver domain; Region: Response_reg; pfam00072 375286006679 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286006680 active site 375286006681 phosphorylation site [posttranslational modification] 375286006682 intermolecular recognition site; other site 375286006683 dimerization interface [polypeptide binding]; other site 375286006684 flagellar motor protein MotB; Validated; Region: motB; PRK09041 375286006685 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 375286006686 ligand binding site [chemical binding]; other site 375286006687 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 375286006688 flagellar motor protein MotA; Validated; Region: PRK09110 375286006689 Methyltransferase domain; Region: Methyltransf_18; pfam12847 375286006690 S-adenosylmethionine binding site [chemical binding]; other site 375286006691 transcriptional activator FlhC; Provisional; Region: PRK12722 375286006692 transcriptional activator FlhD; Provisional; Region: PRK02909 375286006693 aspartate kinase; Reviewed; Region: PRK06635 375286006694 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 375286006695 putative nucleotide binding site [chemical binding]; other site 375286006696 putative catalytic residues [active] 375286006697 putative Mg ion binding site [ion binding]; other site 375286006698 putative aspartate binding site [chemical binding]; other site 375286006699 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 375286006700 putative allosteric regulatory site; other site 375286006701 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 375286006702 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 375286006703 TilS substrate binding domain; Region: TilS; pfam09179 375286006704 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 375286006705 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 375286006706 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 375286006707 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 375286006708 endonuclease III; Region: ENDO3c; smart00478 375286006709 minor groove reading motif; other site 375286006710 helix-hairpin-helix signature motif; other site 375286006711 substrate binding pocket [chemical binding]; other site 375286006712 active site 375286006713 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 375286006714 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 375286006715 active site 375286006716 HIGH motif; other site 375286006717 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 375286006718 KMSKS motif; other site 375286006719 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 375286006720 tRNA binding surface [nucleotide binding]; other site 375286006721 anticodon binding site; other site 375286006722 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 375286006723 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 375286006724 substrate binding site [chemical binding]; other site 375286006725 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 375286006726 substrate binding site [chemical binding]; other site 375286006727 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 375286006728 putative active site [active] 375286006729 putative metal binding site [ion binding]; other site 375286006730 hypothetical protein; Provisional; Region: PRK11239 375286006731 Protein of unknown function, DUF480; Region: DUF480; pfam04337 375286006732 serine O-acetyltransferase; Region: cysE; TIGR01172 375286006733 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 375286006734 trimer interface [polypeptide binding]; other site 375286006735 active site 375286006736 substrate binding site [chemical binding]; other site 375286006737 CoA binding site [chemical binding]; other site 375286006738 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 375286006739 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 375286006740 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 375286006741 ribonuclease R; Region: RNase_R; TIGR02063 375286006742 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 375286006743 RNB domain; Region: RNB; pfam00773 375286006744 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 375286006745 RNA binding site [nucleotide binding]; other site 375286006746 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 375286006747 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 375286006748 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 375286006749 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 375286006750 GDP-binding site [chemical binding]; other site 375286006751 ACT binding site; other site 375286006752 IMP binding site; other site 375286006753 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 375286006754 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 375286006755 dimer interface [polypeptide binding]; other site 375286006756 motif 1; other site 375286006757 active site 375286006758 motif 2; other site 375286006759 motif 3; other site 375286006760 HflC protein; Region: hflC; TIGR01932 375286006761 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 375286006762 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 375286006763 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 375286006764 HflK protein; Region: hflK; TIGR01933 375286006765 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 375286006766 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 375286006767 HflX GTPase family; Region: HflX; cd01878 375286006768 G1 box; other site 375286006769 GTP/Mg2+ binding site [chemical binding]; other site 375286006770 Switch I region; other site 375286006771 G2 box; other site 375286006772 G3 box; other site 375286006773 Switch II region; other site 375286006774 G4 box; other site 375286006775 G5 box; other site 375286006776 bacterial Hfq-like; Region: Hfq; cd01716 375286006777 hexamer interface [polypeptide binding]; other site 375286006778 Sm1 motif; other site 375286006779 RNA binding site [nucleotide binding]; other site 375286006780 Sm2 motif; other site 375286006781 GTP-binding protein Der; Reviewed; Region: PRK00093 375286006782 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 375286006783 G1 box; other site 375286006784 GTP/Mg2+ binding site [chemical binding]; other site 375286006785 Switch I region; other site 375286006786 G2 box; other site 375286006787 Switch II region; other site 375286006788 G3 box; other site 375286006789 G4 box; other site 375286006790 G5 box; other site 375286006791 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 375286006792 G1 box; other site 375286006793 GTP/Mg2+ binding site [chemical binding]; other site 375286006794 Switch I region; other site 375286006795 G2 box; other site 375286006796 G3 box; other site 375286006797 Switch II region; other site 375286006798 G4 box; other site 375286006799 G5 box; other site 375286006800 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 375286006801 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 375286006802 Trp docking motif [polypeptide binding]; other site 375286006803 active site 375286006804 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 375286006805 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 375286006806 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 375286006807 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 375286006808 dimer interface [polypeptide binding]; other site 375286006809 motif 1; other site 375286006810 active site 375286006811 motif 2; other site 375286006812 motif 3; other site 375286006813 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 375286006814 anticodon binding site; other site 375286006815 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 375286006816 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 375286006817 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 375286006818 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 375286006819 non-specific DNA binding site [nucleotide binding]; other site 375286006820 salt bridge; other site 375286006821 sequence-specific DNA binding site [nucleotide binding]; other site 375286006822 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 375286006823 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 375286006824 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 375286006825 binding surface 375286006826 TPR motif; other site 375286006827 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 375286006828 binding surface 375286006829 TPR motif; other site 375286006830 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 375286006831 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 375286006832 FeS/SAM binding site; other site 375286006833 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 375286006834 active site 375286006835 multimer interface [polypeptide binding]; other site 375286006836 YccA-like proteins; Region: YccA_like; cd10433 375286006837 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 375286006838 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 375286006839 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 375286006840 S-adenosylmethionine binding site [chemical binding]; other site 375286006841 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 375286006842 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 375286006843 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286006844 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 375286006845 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 375286006846 DNA binding residues [nucleotide binding] 375286006847 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 375286006848 Peptidase family M23; Region: Peptidase_M23; pfam01551 375286006849 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 375286006850 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 375286006851 S-adenosylmethionine binding site [chemical binding]; other site 375286006852 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 375286006853 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 375286006854 DEAD/DEAH box helicase; Region: DEAD; pfam00270 375286006855 DEAD_2; Region: DEAD_2; pfam06733 375286006856 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 375286006857 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 375286006858 active site 375286006859 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 375286006860 dimerization interface [polypeptide binding]; other site 375286006861 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 375286006862 PAS domain; Region: PAS_9; pfam13426 375286006863 putative active site [active] 375286006864 heme pocket [chemical binding]; other site 375286006865 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286006866 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286006867 metal binding site [ion binding]; metal-binding site 375286006868 active site 375286006869 I-site; other site 375286006870 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 375286006871 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 375286006872 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 375286006873 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 375286006874 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 375286006875 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 375286006876 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286006877 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286006878 metal binding site [ion binding]; metal-binding site 375286006879 active site 375286006880 I-site; other site 375286006881 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 375286006882 2-isopropylmalate synthase; Validated; Region: PRK00915 375286006883 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 375286006884 active site 375286006885 catalytic residues [active] 375286006886 metal binding site [ion binding]; metal-binding site 375286006887 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 375286006888 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 375286006889 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 375286006890 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 375286006891 ketol-acid reductoisomerase; Provisional; Region: PRK05479 375286006892 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 375286006893 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 375286006894 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 375286006895 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 375286006896 putative valine binding site [chemical binding]; other site 375286006897 dimer interface [polypeptide binding]; other site 375286006898 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 375286006899 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 375286006900 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 375286006901 PYR/PP interface [polypeptide binding]; other site 375286006902 dimer interface [polypeptide binding]; other site 375286006903 TPP binding site [chemical binding]; other site 375286006904 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 375286006905 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 375286006906 TPP-binding site [chemical binding]; other site 375286006907 dimer interface [polypeptide binding]; other site 375286006908 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286006909 RNA polymerase factor sigma-70; Validated; Region: PRK09047 375286006910 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 375286006911 DNA binding residues [nucleotide binding] 375286006912 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 375286006913 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 375286006914 RDD family; Region: RDD; pfam06271 375286006915 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 375286006916 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 375286006917 hypothetical protein; Provisional; Region: PRK05939 375286006918 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 375286006919 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 375286006920 catalytic residue [active] 375286006921 amidophosphoribosyltransferase; Provisional; Region: PRK09246 375286006922 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 375286006923 active site 375286006924 tetramer interface [polypeptide binding]; other site 375286006925 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 375286006926 active site 375286006927 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 375286006928 Colicin V production protein; Region: Colicin_V; pfam02674 375286006929 Sporulation related domain; Region: SPOR; pfam05036 375286006930 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 375286006931 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 375286006932 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 375286006933 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 375286006934 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 375286006935 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 375286006936 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 375286006937 substrate binding site [chemical binding]; other site 375286006938 active site 375286006939 catalytic residues [active] 375286006940 heterodimer interface [polypeptide binding]; other site 375286006941 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 375286006942 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 375286006943 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286006944 catalytic residue [active] 375286006945 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 375286006946 active site 375286006947 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 375286006948 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 375286006949 dimerization interface 3.5A [polypeptide binding]; other site 375286006950 active site 375286006951 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 375286006952 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 375286006953 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 375286006954 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 375286006955 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 375286006956 tartrate dehydrogenase; Region: TTC; TIGR02089 375286006957 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 375286006958 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 375286006959 substrate binding site [chemical binding]; other site 375286006960 Predicted small secreted protein [Function unknown]; Region: COG5510 375286006961 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 375286006962 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 375286006963 substrate binding site [chemical binding]; other site 375286006964 ligand binding site [chemical binding]; other site 375286006965 Peptidase family M48; Region: Peptidase_M48; pfam01435 375286006966 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 375286006967 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 375286006968 Tetramer interface [polypeptide binding]; other site 375286006969 active site 375286006970 FMN-binding site [chemical binding]; other site 375286006971 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 375286006972 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286006973 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286006974 metal binding site [ion binding]; metal-binding site 375286006975 active site 375286006976 I-site; other site 375286006977 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 375286006978 Major Facilitator Superfamily; Region: MFS_1; pfam07690 375286006979 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 375286006980 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 375286006981 putative acyl-acceptor binding pocket; other site 375286006982 FOG: CBS domain [General function prediction only]; Region: COG0517 375286006983 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 375286006984 Protein of unknown function (DUF962); Region: DUF962; pfam06127 375286006985 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 375286006986 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 375286006987 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 375286006988 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 375286006989 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 375286006990 FAD binding domain; Region: FAD_binding_4; pfam01565 375286006991 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 375286006992 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 375286006993 tetramer interface [polypeptide binding]; other site 375286006994 heme binding pocket [chemical binding]; other site 375286006995 NADPH binding site [chemical binding]; other site 375286006996 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 375286006997 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 375286006998 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 375286006999 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 375286007000 catalytic residue [active] 375286007001 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 375286007002 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 375286007003 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 375286007004 Terminase-like family; Region: Terminase_6; pfam03237 375286007005 Uncharacterized conserved protein [Function unknown]; Region: COG5323 375286007006 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 375286007007 NUMOD4 motif; Region: NUMOD4; pfam07463 375286007008 HNH endonuclease; Region: HNH_3; pfam13392 375286007009 NinB protein; Region: NinB; pfam05772 375286007010 MarR family; Region: MarR_2; cl17246 375286007011 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; pfam05869 375286007012 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 375286007013 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 375286007014 non-specific DNA binding site [nucleotide binding]; other site 375286007015 salt bridge; other site 375286007016 sequence-specific DNA binding site [nucleotide binding]; other site 375286007017 Staphylococcal nuclease homologues; Region: SNc; smart00318 375286007018 Catalytic site; other site 375286007019 Staphylococcal nuclease homologue; Region: SNase; pfam00565 375286007020 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 375286007021 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 375286007022 Protein of unknown function (DUF551); Region: DUF551; pfam04448 375286007023 ERF superfamily; Region: ERF; pfam04404 375286007024 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 375286007025 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 375286007026 dimer interface [polypeptide binding]; other site 375286007027 ssDNA binding site [nucleotide binding]; other site 375286007028 tetramer (dimer of dimers) interface [polypeptide binding]; other site 375286007029 HNH endonuclease; Region: HNH_3; pfam13392 375286007030 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 375286007031 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 375286007032 active site 375286007033 DNA binding site [nucleotide binding] 375286007034 Int/Topo IB signature motif; other site 375286007035 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 375286007036 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 375286007037 active site 375286007038 substrate binding site [chemical binding]; other site 375286007039 metal binding site [ion binding]; metal-binding site 375286007040 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 375286007041 dihydropteroate synthase; Region: DHPS; TIGR01496 375286007042 substrate binding pocket [chemical binding]; other site 375286007043 dimer interface [polypeptide binding]; other site 375286007044 inhibitor binding site; inhibition site 375286007045 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 375286007046 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 375286007047 Walker A motif; other site 375286007048 ATP binding site [chemical binding]; other site 375286007049 Walker B motif; other site 375286007050 arginine finger; other site 375286007051 Peptidase family M41; Region: Peptidase_M41; pfam01434 375286007052 FtsJ-like methyltransferase; Region: FtsJ; cl17430 375286007053 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 375286007054 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 375286007055 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 375286007056 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 375286007057 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 375286007058 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 375286007059 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 375286007060 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 375286007061 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 375286007062 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 375286007063 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 375286007064 ATP-grasp domain; Region: ATP-grasp_4; cl17255 375286007065 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 375286007066 IMP binding site; other site 375286007067 dimer interface [polypeptide binding]; other site 375286007068 interdomain contacts; other site 375286007069 partial ornithine binding site; other site 375286007070 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 375286007071 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 375286007072 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 375286007073 catalytic site [active] 375286007074 subunit interface [polypeptide binding]; other site 375286007075 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 375286007076 Response regulator receiver domain; Region: Response_reg; pfam00072 375286007077 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286007078 active site 375286007079 phosphorylation site [posttranslational modification] 375286007080 intermolecular recognition site; other site 375286007081 dimerization interface [polypeptide binding]; other site 375286007082 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286007083 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286007084 I-site; other site 375286007085 active site 375286007086 metal binding site [ion binding]; metal-binding site 375286007087 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 375286007088 NlpC/P60 family; Region: NLPC_P60; pfam00877 375286007089 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 375286007090 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 375286007091 active site 375286007092 nucleophile elbow; other site 375286007093 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 375286007094 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 375286007095 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 375286007096 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 375286007097 NADP binding site [chemical binding]; other site 375286007098 active site 375286007099 putative substrate binding site [chemical binding]; other site 375286007100 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 375286007101 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 375286007102 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 375286007103 substrate binding site; other site 375286007104 tetramer interface; other site 375286007105 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 375286007106 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 375286007107 NAD binding site [chemical binding]; other site 375286007108 substrate binding site [chemical binding]; other site 375286007109 homodimer interface [polypeptide binding]; other site 375286007110 active site 375286007111 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 375286007112 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 375286007113 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 375286007114 NAD(P) binding site [chemical binding]; other site 375286007115 homodimer interface [polypeptide binding]; other site 375286007116 substrate binding site [chemical binding]; other site 375286007117 active site 375286007118 Bacterial sugar transferase; Region: Bac_transf; pfam02397 375286007119 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 375286007120 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 375286007121 putative NAD(P) binding site [chemical binding]; other site 375286007122 active site 375286007123 putative substrate binding site [chemical binding]; other site 375286007124 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 375286007125 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 375286007126 active site 375286007127 homodimer interface [polypeptide binding]; other site 375286007128 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 375286007129 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 375286007130 NAD(P) binding site [chemical binding]; other site 375286007131 homodimer interface [polypeptide binding]; other site 375286007132 substrate binding site [chemical binding]; other site 375286007133 active site 375286007134 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 375286007135 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 375286007136 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 375286007137 NADP binding site [chemical binding]; other site 375286007138 active site 375286007139 putative substrate binding site [chemical binding]; other site 375286007140 putative glycosyl transferase; Provisional; Region: PRK10307 375286007141 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 375286007142 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 375286007143 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 375286007144 putative ADP-binding pocket [chemical binding]; other site 375286007145 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 375286007146 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375286007147 NAD(P) binding site [chemical binding]; other site 375286007148 active site 375286007149 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 375286007150 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 375286007151 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 375286007152 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 375286007153 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 375286007154 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 375286007155 Ligand Binding Site [chemical binding]; other site 375286007156 imidazole glycerol phosphate synthase subunit HisF; Provisional; Region: PRK01033 375286007157 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 375286007158 substrate binding site [chemical binding]; other site 375286007159 glutamase interaction surface [polypeptide binding]; other site 375286007160 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 375286007161 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 375286007162 putative active site [active] 375286007163 oxyanion strand; other site 375286007164 catalytic triad [active] 375286007165 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 375286007166 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 375286007167 Methyltransferase domain; Region: Methyltransf_23; pfam13489 375286007168 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 375286007169 S-adenosylmethionine binding site [chemical binding]; other site 375286007170 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 375286007171 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 375286007172 active site 375286007173 metal binding site [ion binding]; metal-binding site 375286007174 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 375286007175 extended (e) SDRs; Region: SDR_e; cd08946 375286007176 NAD(P) binding site [chemical binding]; other site 375286007177 active site 375286007178 substrate binding site [chemical binding]; other site 375286007179 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 375286007180 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 375286007181 inhibitor-cofactor binding pocket; inhibition site 375286007182 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286007183 catalytic residue [active] 375286007184 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 375286007185 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375286007186 NAD(P) binding site [chemical binding]; other site 375286007187 active site 375286007188 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 375286007189 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 375286007190 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 375286007191 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 375286007192 putative trimer interface [polypeptide binding]; other site 375286007193 putative active site [active] 375286007194 putative substrate binding site [chemical binding]; other site 375286007195 putative CoA binding site [chemical binding]; other site 375286007196 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 375286007197 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 375286007198 inhibitor-cofactor binding pocket; inhibition site 375286007199 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286007200 catalytic residue [active] 375286007201 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 375286007202 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 375286007203 putative NAD(P) binding site [chemical binding]; other site 375286007204 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 375286007205 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 375286007206 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 375286007207 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 375286007208 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 375286007209 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 375286007210 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 375286007211 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 375286007212 active site 375286007213 homodimer interface [polypeptide binding]; other site 375286007214 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 375286007215 non-specific DNA interactions [nucleotide binding]; other site 375286007216 DNA binding site [nucleotide binding] 375286007217 sequence specific DNA binding site [nucleotide binding]; other site 375286007218 putative cAMP binding site [chemical binding]; other site 375286007219 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 375286007220 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 375286007221 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 375286007222 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 375286007223 dimer interface [polypeptide binding]; other site 375286007224 phosphorylation site [posttranslational modification] 375286007225 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286007226 ATP binding site [chemical binding]; other site 375286007227 Mg2+ binding site [ion binding]; other site 375286007228 G-X-G motif; other site 375286007229 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 375286007230 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286007231 active site 375286007232 phosphorylation site [posttranslational modification] 375286007233 intermolecular recognition site; other site 375286007234 dimerization interface [polypeptide binding]; other site 375286007235 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 375286007236 DNA binding site [nucleotide binding] 375286007237 transcriptional regulator PhoU; Provisional; Region: PRK11115 375286007238 PhoU domain; Region: PhoU; pfam01895 375286007239 PhoU domain; Region: PhoU; pfam01895 375286007240 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 375286007241 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 375286007242 Walker A/P-loop; other site 375286007243 ATP binding site [chemical binding]; other site 375286007244 Q-loop/lid; other site 375286007245 ABC transporter signature motif; other site 375286007246 Walker B; other site 375286007247 D-loop; other site 375286007248 H-loop/switch region; other site 375286007249 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 375286007250 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286007251 dimer interface [polypeptide binding]; other site 375286007252 conserved gate region; other site 375286007253 putative PBP binding loops; other site 375286007254 ABC-ATPase subunit interface; other site 375286007255 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 375286007256 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286007257 dimer interface [polypeptide binding]; other site 375286007258 conserved gate region; other site 375286007259 putative PBP binding loops; other site 375286007260 ABC-ATPase subunit interface; other site 375286007261 PBP superfamily domain; Region: PBP_like_2; cl17296 375286007262 polyphosphate kinase; Provisional; Region: PRK05443 375286007263 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 375286007264 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 375286007265 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 375286007266 putative domain interface [polypeptide binding]; other site 375286007267 putative active site [active] 375286007268 catalytic site [active] 375286007269 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 375286007270 putative domain interface [polypeptide binding]; other site 375286007271 putative active site [active] 375286007272 catalytic site [active] 375286007273 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 375286007274 catalytic core [active] 375286007275 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 375286007276 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 375286007277 PhnA protein; Region: PhnA; pfam03831 375286007278 major facilitator superfamily transporter; Provisional; Region: PRK05122 375286007279 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 375286007280 putative substrate translocation pore; other site 375286007281 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 375286007282 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 375286007283 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 375286007284 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 375286007285 putative active site [active] 375286007286 putative metal binding site [ion binding]; other site 375286007287 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 375286007288 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 375286007289 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 375286007290 putative ligand binding site [chemical binding]; other site 375286007291 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 375286007292 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 375286007293 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 375286007294 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 375286007295 nucleotide binding site [chemical binding]; other site 375286007296 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 375286007297 putative chaperone; Provisional; Region: PRK11678 375286007298 nucleotide binding site [chemical binding]; other site 375286007299 putative NEF/HSP70 interaction site [polypeptide binding]; other site 375286007300 SBD interface [polypeptide binding]; other site 375286007301 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 375286007302 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 375286007303 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 375286007304 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 375286007305 putative active site [active] 375286007306 heme pocket [chemical binding]; other site 375286007307 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 375286007308 putative active site [active] 375286007309 heme pocket [chemical binding]; other site 375286007310 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286007311 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286007312 metal binding site [ion binding]; metal-binding site 375286007313 active site 375286007314 I-site; other site 375286007315 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 375286007316 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 375286007317 tetramer (dimer of dimers) interface [polypeptide binding]; other site 375286007318 active site 375286007319 dimer interface [polypeptide binding]; other site 375286007320 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 375286007321 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 375286007322 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 375286007323 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 375286007324 active site 375286007325 intersubunit interface [polypeptide binding]; other site 375286007326 catalytic residue [active] 375286007327 phosphogluconate dehydratase; Validated; Region: PRK09054 375286007328 6-phosphogluconate dehydratase; Region: edd; TIGR01196 375286007329 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 375286007330 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 375286007331 active site 375286007332 dimer interface [polypeptide binding]; other site 375286007333 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 375286007334 dimer interface [polypeptide binding]; other site 375286007335 active site 375286007336 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 375286007337 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 375286007338 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 375286007339 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 375286007340 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 375286007341 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 375286007342 putative active site [active] 375286007343 transaldolase-like protein; Provisional; Region: PTZ00411 375286007344 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 375286007345 active site 375286007346 dimer interface [polypeptide binding]; other site 375286007347 catalytic residue [active] 375286007348 benzoate transport; Region: 2A0115; TIGR00895 375286007349 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 375286007350 putative substrate translocation pore; other site 375286007351 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 375286007352 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 375286007353 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 375286007354 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 375286007355 GDP-binding site [chemical binding]; other site 375286007356 ACT binding site; other site 375286007357 IMP binding site; other site 375286007358 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 375286007359 homotrimer interaction site [polypeptide binding]; other site 375286007360 putative active site [active] 375286007361 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 375286007362 Helix-turn-helix domain; Region: HTH_18; pfam12833 375286007363 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375286007364 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 375286007365 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 375286007366 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286007367 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286007368 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 375286007369 putative effector binding pocket; other site 375286007370 dimerization interface [polypeptide binding]; other site 375286007371 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 375286007372 classical (c) SDRs; Region: SDR_c; cd05233 375286007373 NAD(P) binding site [chemical binding]; other site 375286007374 active site 375286007375 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 375286007376 active site 1 [active] 375286007377 dimer interface [polypeptide binding]; other site 375286007378 hexamer interface [polypeptide binding]; other site 375286007379 active site 2 [active] 375286007380 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 375286007381 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 375286007382 CoA-transferase family III; Region: CoA_transf_3; pfam02515 375286007383 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 375286007384 recombination protein RecR; Reviewed; Region: recR; PRK00076 375286007385 RecR protein; Region: RecR; pfam02132 375286007386 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 375286007387 putative active site [active] 375286007388 putative metal-binding site [ion binding]; other site 375286007389 tetramer interface [polypeptide binding]; other site 375286007390 hypothetical protein; Validated; Region: PRK00153 375286007391 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 375286007392 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 375286007393 Walker A motif; other site 375286007394 ATP binding site [chemical binding]; other site 375286007395 Walker B motif; other site 375286007396 DNA polymerase III subunit delta'; Validated; Region: PRK08485 375286007397 arginine finger; other site 375286007398 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 375286007399 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 375286007400 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 375286007401 active site 375286007402 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 375286007403 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 375286007404 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 375286007405 HlyD family secretion protein; Region: HlyD_3; pfam13437 375286007406 transcriptional regulator SlyA; Provisional; Region: PRK03573 375286007407 MarR family; Region: MarR_2; pfam12802 375286007408 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 375286007409 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 375286007410 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 375286007411 N-acetyl-D-glucosamine binding site [chemical binding]; other site 375286007412 catalytic residue [active] 375286007413 aminotransferase; Validated; Region: PRK07337 375286007414 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 375286007415 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286007416 homodimer interface [polypeptide binding]; other site 375286007417 catalytic residue [active] 375286007418 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 375286007419 putative RNA binding site [nucleotide binding]; other site 375286007420 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 375286007421 homopentamer interface [polypeptide binding]; other site 375286007422 active site 375286007423 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 375286007424 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 375286007425 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 375286007426 dimerization interface [polypeptide binding]; other site 375286007427 active site 375286007428 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286007429 transcriptional activator TtdR; Provisional; Region: PRK09801 375286007430 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 375286007431 putative effector binding pocket; other site 375286007432 putative dimerization interface [polypeptide binding]; other site 375286007433 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 375286007434 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 375286007435 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 375286007436 substrate binding site [chemical binding]; other site 375286007437 ligand binding site [chemical binding]; other site 375286007438 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 375286007439 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 375286007440 substrate binding site [chemical binding]; other site 375286007441 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 375286007442 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 375286007443 substrate binding pocket [chemical binding]; other site 375286007444 membrane-bound complex binding site; other site 375286007445 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286007446 metal binding site [ion binding]; metal-binding site 375286007447 active site 375286007448 I-site; other site 375286007449 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 375286007450 formyl-coenzyme A transferase; Provisional; Region: PRK05398 375286007451 CoA-transferase family III; Region: CoA_transf_3; pfam02515 375286007452 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 375286007453 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 375286007454 conserved cys residue [active] 375286007455 formyl-coenzyme A transferase; Provisional; Region: PRK05398 375286007456 CoA-transferase family III; Region: CoA_transf_3; pfam02515 375286007457 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 375286007458 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 375286007459 DNA binding residues [nucleotide binding] 375286007460 fec operon regulator FecR; Reviewed; Region: PRK09774 375286007461 FecR protein; Region: FecR; pfam04773 375286007462 Secretin and TonB N terminus short domain; Region: STN; smart00965 375286007463 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 375286007464 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 375286007465 N-terminal plug; other site 375286007466 ligand-binding site [chemical binding]; other site 375286007467 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 375286007468 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 375286007469 dimerization interface [polypeptide binding]; other site 375286007470 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 375286007471 dimer interface [polypeptide binding]; other site 375286007472 phosphorylation site [posttranslational modification] 375286007473 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286007474 ATP binding site [chemical binding]; other site 375286007475 Mg2+ binding site [ion binding]; other site 375286007476 G-X-G motif; other site 375286007477 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 375286007478 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286007479 active site 375286007480 phosphorylation site [posttranslational modification] 375286007481 intermolecular recognition site; other site 375286007482 dimerization interface [polypeptide binding]; other site 375286007483 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 375286007484 DNA binding site [nucleotide binding] 375286007485 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 375286007486 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 375286007487 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 375286007488 Ligand binding site; other site 375286007489 Putative Catalytic site; other site 375286007490 DXD motif; other site 375286007491 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 375286007492 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375286007493 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 375286007494 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 375286007495 Autotransporter beta-domain; Region: Autotransporter; smart00869 375286007496 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 375286007497 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375286007498 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 375286007499 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 375286007500 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 375286007501 FecR protein; Region: FecR; pfam04773 375286007502 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 375286007503 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286007504 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 375286007505 Secretin and TonB N terminus short domain; Region: STN; smart00965 375286007506 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 375286007507 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 375286007508 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 375286007509 protein binding site [polypeptide binding]; other site 375286007510 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 375286007511 protein binding site [polypeptide binding]; other site 375286007512 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 375286007513 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 375286007514 haemagglutination activity domain; Region: Haemagg_act; pfam05860 375286007515 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 375286007516 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 375286007517 FecR protein; Region: FecR; pfam04773 375286007518 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 375286007519 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286007520 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 375286007521 DNA binding residues [nucleotide binding] 375286007522 Secretin and TonB N terminus short domain; Region: STN; smart00965 375286007523 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 375286007524 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 375286007525 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 375286007526 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 375286007527 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 375286007528 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 375286007529 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 375286007530 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 375286007531 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 375286007532 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 375286007533 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 375286007534 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 375286007535 Surface antigen; Region: Bac_surface_Ag; pfam01103 375286007536 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 375286007537 haemagglutination activity domain; Region: Haemagg_act; pfam05860 375286007538 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 375286007539 FecR protein; Region: FecR; pfam04773 375286007540 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 375286007541 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 375286007542 Secretin and TonB N terminus short domain; Region: STN; smart00965 375286007543 Gram-negative bacterial tonB protein; Region: TonB; cl10048 375286007544 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 375286007545 Protein of unknown function (DUF521); Region: DUF521; pfam04412 375286007546 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 375286007547 substrate binding site [chemical binding]; other site 375286007548 ligand binding site [chemical binding]; other site 375286007549 Protein of unknown function DUF126; Region: DUF126; pfam01989 375286007550 substrate binding site [chemical binding]; other site 375286007551 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 375286007552 non-specific DNA binding site [nucleotide binding]; other site 375286007553 salt bridge; other site 375286007554 sequence-specific DNA binding site [nucleotide binding]; other site 375286007555 Cupin domain; Region: Cupin_2; pfam07883 375286007556 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 375286007557 conserved cys residue [active] 375286007558 metabolite-proton symporter; Region: 2A0106; TIGR00883 375286007559 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 375286007560 putative substrate translocation pore; other site 375286007561 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 375286007562 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 375286007563 4Fe-4S binding domain; Region: Fer4; pfam00037 375286007564 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 375286007565 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 375286007566 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286007567 ATP binding site [chemical binding]; other site 375286007568 Mg2+ binding site [ion binding]; other site 375286007569 G-X-G motif; other site 375286007570 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 375286007571 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286007572 active site 375286007573 phosphorylation site [posttranslational modification] 375286007574 intermolecular recognition site; other site 375286007575 dimerization interface [polypeptide binding]; other site 375286007576 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 375286007577 DNA binding site [nucleotide binding] 375286007578 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 375286007579 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 375286007580 short chain dehydrogenase; Validated; Region: PRK08264 375286007581 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375286007582 NAD(P) binding site [chemical binding]; other site 375286007583 active site 375286007584 Predicted transcriptional regulators [Transcription]; Region: COG1733 375286007585 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 375286007586 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 375286007587 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375286007588 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 375286007589 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 375286007590 Autotransporter beta-domain; Region: Autotransporter; smart00869 375286007591 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 375286007592 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 375286007593 nucleophile elbow; other site 375286007594 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 375286007595 Surface antigen; Region: Bac_surface_Ag; pfam01103 375286007596 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 375286007597 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 375286007598 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 375286007599 Uncharacterized conserved protein [Function unknown]; Region: COG1262 375286007600 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 375286007601 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 375286007602 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 375286007603 Sulfate transporter family; Region: Sulfate_transp; pfam00916 375286007604 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 375286007605 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 375286007606 Sulfatase; Region: Sulfatase; pfam00884 375286007607 Domain of unknown function (DUF202); Region: DUF202; pfam02656 375286007608 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 375286007609 Surface antigen; Region: Bac_surface_Ag; pfam01103 375286007610 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 375286007611 Response regulator receiver domain; Region: Response_reg; pfam00072 375286007612 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286007613 active site 375286007614 phosphorylation site [posttranslational modification] 375286007615 intermolecular recognition site; other site 375286007616 dimerization interface [polypeptide binding]; other site 375286007617 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 375286007618 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 375286007619 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286007620 active site 375286007621 phosphorylation site [posttranslational modification] 375286007622 intermolecular recognition site; other site 375286007623 dimerization interface [polypeptide binding]; other site 375286007624 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 375286007625 DNA binding residues [nucleotide binding] 375286007626 dimerization interface [polypeptide binding]; other site 375286007627 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 375286007628 dimer interface [polypeptide binding]; other site 375286007629 phosphorylation site [posttranslational modification] 375286007630 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286007631 ATP binding site [chemical binding]; other site 375286007632 Mg2+ binding site [ion binding]; other site 375286007633 G-X-G motif; other site 375286007634 Tetratricopeptide repeat; Region: TPR_2; pfam07719 375286007635 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 375286007636 Sulfatase; Region: Sulfatase; pfam00884 375286007637 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 375286007638 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 375286007639 Autotransporter beta-domain; Region: Autotransporter; smart00869 375286007640 Surface antigen; Region: Bac_surface_Ag; pfam01103 375286007641 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 375286007642 Mechanosensitive ion channel; Region: MS_channel; pfam00924 375286007643 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 375286007644 Sulfatase; Region: Sulfatase; pfam00884 375286007645 Mechanosensitive ion channel; Region: MS_channel; pfam00924 375286007646 Protein of unknown function (DUF1622); Region: DUF1622; pfam07784 375286007647 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 375286007648 Lumazine binding domain; Region: Lum_binding; pfam00677 375286007649 Lumazine binding domain; Region: Lum_binding; pfam00677 375286007650 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 375286007651 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 375286007652 catalytic motif [active] 375286007653 Zn binding site [ion binding]; other site 375286007654 RibD C-terminal domain; Region: RibD_C; cl17279 375286007655 Type II transport protein GspH; Region: GspH; pfam12019 375286007656 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 375286007657 PilX N-terminal; Region: PilX_N; pfam14341 375286007658 Type IV pilus assembly protein PilX C-term; Region: PilX; pfam13681 375286007659 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 375286007660 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 375286007661 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 375286007662 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 375286007663 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 375286007664 ATP cone domain; Region: ATP-cone; pfam03477 375286007665 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 375286007666 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 375286007667 dimer interface [polypeptide binding]; other site 375286007668 active site 375286007669 glycine-pyridoxal phosphate binding site [chemical binding]; other site 375286007670 folate binding site [chemical binding]; other site 375286007671 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 375286007672 putative catalytic site [active] 375286007673 putative phosphate binding site [ion binding]; other site 375286007674 active site 375286007675 metal binding site A [ion binding]; metal-binding site 375286007676 DNA binding site [nucleotide binding] 375286007677 putative AP binding site [nucleotide binding]; other site 375286007678 putative metal binding site B [ion binding]; other site 375286007679 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 375286007680 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 375286007681 Coenzyme A binding pocket [chemical binding]; other site 375286007682 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 375286007683 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 375286007684 S-adenosylmethionine binding site [chemical binding]; other site 375286007685 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 375286007686 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286007687 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 375286007688 substrate binding site [chemical binding]; other site 375286007689 dimerization interface [polypeptide binding]; other site 375286007690 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 375286007691 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 375286007692 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 375286007693 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 375286007694 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 375286007695 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 375286007696 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 375286007697 Active Sites [active] 375286007698 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 375286007699 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 375286007700 Active Sites [active] 375286007701 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 375286007702 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 375286007703 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 375286007704 CysD dimerization site [polypeptide binding]; other site 375286007705 G1 box; other site 375286007706 putative GEF interaction site [polypeptide binding]; other site 375286007707 GTP/Mg2+ binding site [chemical binding]; other site 375286007708 Switch I region; other site 375286007709 G2 box; other site 375286007710 G3 box; other site 375286007711 Switch II region; other site 375286007712 G4 box; other site 375286007713 G5 box; other site 375286007714 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 375286007715 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 375286007716 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 375286007717 active site 375286007718 SAM binding site [chemical binding]; other site 375286007719 homodimer interface [polypeptide binding]; other site 375286007720 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 375286007721 putative active site [active] 375286007722 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 375286007723 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 375286007724 Predicted permeases [General function prediction only]; Region: COG0795 375286007725 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 375286007726 multifunctional aminopeptidase A; Provisional; Region: PRK00913 375286007727 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 375286007728 interface (dimer of trimers) [polypeptide binding]; other site 375286007729 Substrate-binding/catalytic site; other site 375286007730 Zn-binding sites [ion binding]; other site 375286007731 malonic semialdehyde reductase; Provisional; Region: PRK10538 375286007732 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375286007733 NAD(P) binding site [chemical binding]; other site 375286007734 active site 375286007735 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 375286007736 active site 375286007737 TolQ protein; Region: tolQ; TIGR02796 375286007738 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 375286007739 TolR protein; Region: tolR; TIGR02801 375286007740 TolA protein; Region: tolA_full; TIGR02794 375286007741 TonB C terminal; Region: TonB_2; pfam13103 375286007742 translocation protein TolB; Provisional; Region: tolB; PRK02889 375286007743 TolB amino-terminal domain; Region: TolB_N; pfam04052 375286007744 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 375286007745 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 375286007746 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 375286007747 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 375286007748 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 375286007749 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 375286007750 ligand binding site [chemical binding]; other site 375286007751 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 375286007752 Tetratricopeptide repeat; Region: TPR_6; pfam13174 375286007753 PilZ domain; Region: PilZ; pfam07238 375286007754 Autotransporter beta-domain; Region: Autotransporter; smart00869 375286007755 Predicted integral membrane proteins containing uncharacterized repeats [Function unknown]; Region: COG5563 375286007756 Autotransporter beta-domain; Region: Autotransporter; smart00869 375286007757 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 375286007758 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 375286007759 Autotransporter beta-domain; Region: Autotransporter; smart00869 375286007760 Autotransporter beta-domain; Region: Autotransporter; smart00869 375286007761 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 375286007762 classical (c) SDRs; Region: SDR_c; cd05233 375286007763 NAD(P) binding site [chemical binding]; other site 375286007764 active site 375286007765 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 375286007766 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286007767 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 375286007768 dimerization interface [polypeptide binding]; other site 375286007769 substrate binding pocket [chemical binding]; other site 375286007770 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 375286007771 Predicted amidohydrolase [General function prediction only]; Region: COG0388 375286007772 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 375286007773 putative active site [active] 375286007774 catalytic triad [active] 375286007775 putative dimer interface [polypeptide binding]; other site 375286007776 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 375286007777 putative substrate translocation pore; other site 375286007778 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 375286007779 Transcriptional regulator [Transcription]; Region: IclR; COG1414 375286007780 Bacterial transcriptional regulator; Region: IclR; pfam01614 375286007781 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 375286007782 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286007783 putative PBP binding loops; other site 375286007784 dimer interface [polypeptide binding]; other site 375286007785 ABC-ATPase subunit interface; other site 375286007786 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 375286007787 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 375286007788 Walker A/P-loop; other site 375286007789 ATP binding site [chemical binding]; other site 375286007790 Q-loop/lid; other site 375286007791 ABC transporter signature motif; other site 375286007792 Walker B; other site 375286007793 D-loop; other site 375286007794 H-loop/switch region; other site 375286007795 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 375286007796 NMT1-like family; Region: NMT1_2; pfam13379 375286007797 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 375286007798 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 375286007799 active site 375286007800 iron coordination sites [ion binding]; other site 375286007801 substrate binding pocket [chemical binding]; other site 375286007802 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 375286007803 trimer interface [polypeptide binding]; other site 375286007804 active site 375286007805 substrate binding site [chemical binding]; other site 375286007806 CoA binding site [chemical binding]; other site 375286007807 Predicted small secreted protein [Function unknown]; Region: COG5510 375286007808 BON domain; Region: BON; pfam04972 375286007809 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 375286007810 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 375286007811 FMN binding site [chemical binding]; other site 375286007812 active site 375286007813 catalytic residues [active] 375286007814 substrate binding site [chemical binding]; other site 375286007815 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 375286007816 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 375286007817 inhibitor-cofactor binding pocket; inhibition site 375286007818 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286007819 catalytic residue [active] 375286007820 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 375286007821 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 375286007822 G1 box; other site 375286007823 putative GEF interaction site [polypeptide binding]; other site 375286007824 GTP/Mg2+ binding site [chemical binding]; other site 375286007825 Switch I region; other site 375286007826 G2 box; other site 375286007827 G3 box; other site 375286007828 Switch II region; other site 375286007829 G4 box; other site 375286007830 G5 box; other site 375286007831 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 375286007832 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 375286007833 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 375286007834 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 375286007835 RNA binding site [nucleotide binding]; other site 375286007836 active site 375286007837 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 375286007838 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 375286007839 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 375286007840 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 375286007841 translation initiation factor IF-2; Region: IF-2; TIGR00487 375286007842 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 375286007843 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 375286007844 G1 box; other site 375286007845 putative GEF interaction site [polypeptide binding]; other site 375286007846 GTP/Mg2+ binding site [chemical binding]; other site 375286007847 Switch I region; other site 375286007848 G2 box; other site 375286007849 G3 box; other site 375286007850 Switch II region; other site 375286007851 G4 box; other site 375286007852 G5 box; other site 375286007853 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 375286007854 Translation-initiation factor 2; Region: IF-2; pfam11987 375286007855 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 375286007856 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 375286007857 NusA N-terminal domain; Region: NusA_N; pfam08529 375286007858 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 375286007859 RNA binding site [nucleotide binding]; other site 375286007860 homodimer interface [polypeptide binding]; other site 375286007861 NusA-like KH domain; Region: KH_5; pfam13184 375286007862 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 375286007863 G-X-X-G motif; other site 375286007864 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 375286007865 Sm and related proteins; Region: Sm_like; cl00259 375286007866 ribosome maturation protein RimP; Reviewed; Region: PRK00092 375286007867 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 375286007868 putative oligomer interface [polypeptide binding]; other site 375286007869 putative RNA binding site [nucleotide binding]; other site 375286007870 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 375286007871 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 375286007872 RNA binding surface [nucleotide binding]; other site 375286007873 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 375286007874 probable active site [active] 375286007875 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 375286007876 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 375286007877 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 375286007878 nudix motif; other site 375286007879 N-ethylammeline chlorohydrolase; Provisional; Region: PRK07228 375286007880 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 375286007881 active site 375286007882 xanthine permease; Region: pbuX; TIGR03173 375286007883 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 375286007884 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 375286007885 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 375286007886 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 375286007887 iron-sulfur cluster [ion binding]; other site 375286007888 [2Fe-2S] cluster binding site [ion binding]; other site 375286007889 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 375286007890 hydrophobic ligand binding site; other site 375286007891 short chain dehydrogenase; Provisional; Region: PRK12828 375286007892 classical (c) SDRs; Region: SDR_c; cd05233 375286007893 NAD(P) binding site [chemical binding]; other site 375286007894 active site 375286007895 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 375286007896 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 375286007897 FMN-binding pocket [chemical binding]; other site 375286007898 flavin binding motif; other site 375286007899 phosphate binding motif [ion binding]; other site 375286007900 beta-alpha-beta structure motif; other site 375286007901 NAD binding pocket [chemical binding]; other site 375286007902 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 375286007903 catalytic loop [active] 375286007904 iron binding site [ion binding]; other site 375286007905 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 375286007906 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 375286007907 trimer interface [polypeptide binding]; other site 375286007908 eyelet of channel; other site 375286007909 xanthine permease; Region: pbuX; TIGR03173 375286007910 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286007911 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286007912 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 375286007913 putative dimerization interface [polypeptide binding]; other site 375286007914 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 375286007915 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 375286007916 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 375286007917 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 375286007918 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 375286007919 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 375286007920 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 375286007921 quinone interaction residues [chemical binding]; other site 375286007922 active site 375286007923 catalytic residues [active] 375286007924 FMN binding site [chemical binding]; other site 375286007925 substrate binding site [chemical binding]; other site 375286007926 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 375286007927 Clp amino terminal domain; Region: Clp_N; pfam02861 375286007928 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 375286007929 Walker A motif; other site 375286007930 ATP binding site [chemical binding]; other site 375286007931 Walker B motif; other site 375286007932 arginine finger; other site 375286007933 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 375286007934 Walker A motif; other site 375286007935 ATP binding site [chemical binding]; other site 375286007936 Walker B motif; other site 375286007937 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 375286007938 Uncharacterized conserved protein [Function unknown]; Region: COG2127 375286007939 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 375286007940 DNA-binding site [nucleotide binding]; DNA binding site 375286007941 RNA-binding motif; other site 375286007942 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 375286007943 pseudouridine synthase; Region: TIGR00093 375286007944 active site 375286007945 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 375286007946 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 375286007947 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 375286007948 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 375286007949 Uncharacterized conserved protein [Function unknown]; Region: COG2912 375286007950 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 375286007951 ABC transporter ATPase component; Reviewed; Region: PRK11147 375286007952 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 375286007953 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 375286007954 ABC transporter; Region: ABC_tran_2; pfam12848 375286007955 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 375286007956 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 375286007957 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 375286007958 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 375286007959 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 375286007960 active site 375286007961 DNA binding site [nucleotide binding] 375286007962 Int/Topo IB signature motif; other site 375286007963 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 375286007964 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 375286007965 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 375286007966 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 375286007967 catalytic residue [active] 375286007968 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 375286007969 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 375286007970 non-specific DNA binding site [nucleotide binding]; other site 375286007971 salt bridge; other site 375286007972 sequence-specific DNA binding site [nucleotide binding]; other site 375286007973 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 375286007974 active site residue [active] 375286007975 Transcriptional regulators [Transcription]; Region: GntR; COG1802 375286007976 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375286007977 DNA-binding site [nucleotide binding]; DNA binding site 375286007978 FCD domain; Region: FCD; pfam07729 375286007979 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 375286007980 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 375286007981 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 375286007982 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 375286007983 putative substrate translocation pore; other site 375286007984 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 375286007985 amphipathic channel; other site 375286007986 Asn-Pro-Ala signature motifs; other site 375286007987 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 375286007988 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 375286007989 Walker A/P-loop; other site 375286007990 ATP binding site [chemical binding]; other site 375286007991 Q-loop/lid; other site 375286007992 ABC transporter signature motif; other site 375286007993 Walker B; other site 375286007994 D-loop; other site 375286007995 H-loop/switch region; other site 375286007996 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 375286007997 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 375286007998 Walker A/P-loop; other site 375286007999 ATP binding site [chemical binding]; other site 375286008000 Q-loop/lid; other site 375286008001 ABC transporter signature motif; other site 375286008002 Walker B; other site 375286008003 D-loop; other site 375286008004 H-loop/switch region; other site 375286008005 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 375286008006 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 375286008007 TM-ABC transporter signature motif; other site 375286008008 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375286008009 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 375286008010 TM-ABC transporter signature motif; other site 375286008011 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 375286008012 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 375286008013 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 375286008014 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 375286008015 hypothetical protein; Reviewed; Region: PRK00024 375286008016 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 375286008017 MPN+ (JAMM) motif; other site 375286008018 Zinc-binding site [ion binding]; other site 375286008019 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 375286008020 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 375286008021 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 375286008022 putative FMN binding site [chemical binding]; other site 375286008023 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 375286008024 MgtC family; Region: MgtC; pfam02308 375286008025 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 375286008026 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 375286008027 triphosphoribosyl-dephospho-CoA synthase MdcB; Region: malonate_mdcB; TIGR03132 375286008028 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 375286008029 malonate decarboxylase holo-[acyl-carrier-protein] synthase; Region: malonate_mdcG; TIGR03135 375286008030 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 375286008031 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 375286008032 malonate decarboxylase subunit delta; Provisional; Region: PRK02103 375286008033 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 375286008034 Coenzyme A transferase; Region: CoA_trans; cl17247 375286008035 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 375286008036 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375286008037 DNA-binding site [nucleotide binding]; DNA binding site 375286008038 FCD domain; Region: FCD; pfam07729 375286008039 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_26; cd04685 375286008040 nudix motif; other site 375286008041 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 375286008042 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 375286008043 Fatty acid desaturase; Region: FA_desaturase; pfam00487 375286008044 Di-iron ligands [ion binding]; other site 375286008045 Transposase; Region: DDE_Tnp_ISL3; pfam01610 375286008046 Mechanosensitive ion channel; Region: MS_channel; pfam00924 375286008047 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 375286008048 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 375286008049 S-adenosylmethionine binding site [chemical binding]; other site 375286008050 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 375286008051 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 375286008052 active site 375286008053 substrate binding site [chemical binding]; other site 375286008054 cosubstrate binding site; other site 375286008055 catalytic site [active] 375286008056 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 375286008057 putative RNAase interaction site [polypeptide binding]; other site 375286008058 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 375286008059 active site 375286008060 barstar interaction site; other site 375286008061 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 375286008062 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 375286008063 active site 375286008064 nucleophile elbow; other site 375286008065 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 375286008066 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 375286008067 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 375286008068 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 375286008069 adenylate kinase; Reviewed; Region: adk; PRK00279 375286008070 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 375286008071 AMP-binding site [chemical binding]; other site 375286008072 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 375286008073 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 375286008074 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 375286008075 Ligand binding site; other site 375286008076 oligomer interface; other site 375286008077 Uncharacterized conserved protein [Function unknown]; Region: COG2835 375286008078 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 375286008079 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 375286008080 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 375286008081 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 375286008082 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 375286008083 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 375286008084 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 375286008085 Walker A motif; other site 375286008086 ATP binding site [chemical binding]; other site 375286008087 Walker B motif; other site 375286008088 arginine finger; other site 375286008089 Predicted permeases [General function prediction only]; Region: RarD; COG2962 375286008090 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 375286008091 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 375286008092 dimerization interface [polypeptide binding]; other site 375286008093 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375286008094 dimer interface [polypeptide binding]; other site 375286008095 putative CheW interface [polypeptide binding]; other site 375286008096 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 375286008097 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 375286008098 generic binding surface II; other site 375286008099 generic binding surface I; other site 375286008100 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 375286008101 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 375286008102 N-terminal plug; other site 375286008103 ligand-binding site [chemical binding]; other site 375286008104 fec operon regulator FecR; Reviewed; Region: PRK09774 375286008105 FecR protein; Region: FecR; pfam04773 375286008106 RNA polymerase sigma factor; Provisional; Region: PRK12528 375286008107 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286008108 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 375286008109 DNA binding residues [nucleotide binding] 375286008110 superoxide dismutase; Provisional; Region: PRK10543 375286008111 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 375286008112 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 375286008113 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 375286008114 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 375286008115 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 375286008116 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286008117 dimer interface [polypeptide binding]; other site 375286008118 conserved gate region; other site 375286008119 putative PBP binding loops; other site 375286008120 ABC-ATPase subunit interface; other site 375286008121 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286008122 dimer interface [polypeptide binding]; other site 375286008123 conserved gate region; other site 375286008124 putative PBP binding loops; other site 375286008125 ABC-ATPase subunit interface; other site 375286008126 hypothetical protein; Provisional; Region: PRK06185 375286008127 hypothetical protein; Provisional; Region: PRK07236 375286008128 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 375286008129 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 375286008130 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286008131 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 375286008132 putative dimerization interface [polypeptide binding]; other site 375286008133 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 375286008134 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 375286008135 active site clefts [active] 375286008136 zinc binding site [ion binding]; other site 375286008137 dimer interface [polypeptide binding]; other site 375286008138 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 375286008139 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 375286008140 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 375286008141 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 375286008142 S-adenosylmethionine binding site [chemical binding]; other site 375286008143 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 375286008144 GIY-YIG motif/motif A; other site 375286008145 putative active site [active] 375286008146 putative metal binding site [ion binding]; other site 375286008147 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 375286008148 Cytochrome c; Region: Cytochrom_C; pfam00034 375286008149 Methyltransferase domain; Region: Methyltransf_32; pfam13679 375286008150 Methyltransferase domain; Region: Methyltransf_31; pfam13847 375286008151 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 375286008152 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 375286008153 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 375286008154 Surface antigen; Region: Bac_surface_Ag; pfam01103 375286008155 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 375286008156 Family of unknown function (DUF490); Region: DUF490; pfam04357 375286008157 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 375286008158 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 375286008159 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 375286008160 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 375286008161 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 375286008162 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 375286008163 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 375286008164 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 375286008165 Walker A motif; other site 375286008166 ATP binding site [chemical binding]; other site 375286008167 Walker B motif; other site 375286008168 arginine finger; other site 375286008169 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 375286008170 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 375286008171 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286008172 active site 375286008173 phosphorylation site [posttranslational modification] 375286008174 intermolecular recognition site; other site 375286008175 dimerization interface [polypeptide binding]; other site 375286008176 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 375286008177 DNA binding residues [nucleotide binding] 375286008178 dimerization interface [polypeptide binding]; other site 375286008179 Response regulator receiver domain; Region: Response_reg; pfam00072 375286008180 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286008181 active site 375286008182 phosphorylation site [posttranslational modification] 375286008183 intermolecular recognition site; other site 375286008184 dimerization interface [polypeptide binding]; other site 375286008185 PAS fold; Region: PAS_4; pfam08448 375286008186 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 375286008187 putative active site [active] 375286008188 heme pocket [chemical binding]; other site 375286008189 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 375286008190 Histidine kinase; Region: HisKA_3; pfam07730 375286008191 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286008192 ATP binding site [chemical binding]; other site 375286008193 Mg2+ binding site [ion binding]; other site 375286008194 G-X-G motif; other site 375286008195 fumarate hydratase; Reviewed; Region: fumC; PRK00485 375286008196 Class II fumarases; Region: Fumarase_classII; cd01362 375286008197 active site 375286008198 tetramer interface [polypeptide binding]; other site 375286008199 Protein of unknown function, DUF599; Region: DUF599; cl01575 375286008200 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 375286008201 PAS fold; Region: PAS_3; pfam08447 375286008202 putative active site [active] 375286008203 heme pocket [chemical binding]; other site 375286008204 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 375286008205 GAF domain; Region: GAF; pfam01590 375286008206 PAS domain; Region: PAS_9; pfam13426 375286008207 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 375286008208 putative active site [active] 375286008209 heme pocket [chemical binding]; other site 375286008210 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286008211 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286008212 metal binding site [ion binding]; metal-binding site 375286008213 active site 375286008214 I-site; other site 375286008215 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 375286008216 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 375286008217 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 375286008218 substrate binding pocket [chemical binding]; other site 375286008219 membrane-bound complex binding site; other site 375286008220 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 375286008221 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286008222 dimer interface [polypeptide binding]; other site 375286008223 conserved gate region; other site 375286008224 putative PBP binding loops; other site 375286008225 ABC-ATPase subunit interface; other site 375286008226 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 375286008227 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 375286008228 Walker A/P-loop; other site 375286008229 ATP binding site [chemical binding]; other site 375286008230 Q-loop/lid; other site 375286008231 ABC transporter signature motif; other site 375286008232 Walker B; other site 375286008233 D-loop; other site 375286008234 H-loop/switch region; other site 375286008235 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 375286008236 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 375286008237 substrate binding pocket [chemical binding]; other site 375286008238 membrane-bound complex binding site; other site 375286008239 hinge residues; other site 375286008240 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 375286008241 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 375286008242 active site 375286008243 hypothetical protein; Provisional; Region: PRK09936 375286008244 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 375286008245 TPR motif; other site 375286008246 TPR repeat; Region: TPR_11; pfam13414 375286008247 binding surface 375286008248 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 375286008249 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 375286008250 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 375286008251 active site 375286008252 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 375286008253 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 375286008254 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 375286008255 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 375286008256 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 375286008257 active site 375286008258 homodimer interface [polypeptide binding]; other site 375286008259 LysR family transcriptional regulator; Provisional; Region: PRK14997 375286008260 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286008261 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 375286008262 putative effector binding pocket; other site 375286008263 putative dimerization interface [polypeptide binding]; other site 375286008264 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 375286008265 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 375286008266 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 375286008267 putative N-terminal domain interface [polypeptide binding]; other site 375286008268 putative dimer interface [polypeptide binding]; other site 375286008269 putative substrate binding pocket (H-site) [chemical binding]; other site 375286008270 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 375286008271 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 375286008272 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 375286008273 ArsC family; Region: ArsC; pfam03960 375286008274 catalytic residues [active] 375286008275 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 375286008276 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 375286008277 arsenical pump membrane protein; Provisional; Region: PRK15445 375286008278 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 375286008279 transmembrane helices; other site 375286008280 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 375286008281 dimerization interface [polypeptide binding]; other site 375286008282 putative DNA binding site [nucleotide binding]; other site 375286008283 putative Zn2+ binding site [ion binding]; other site 375286008284 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 375286008285 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 375286008286 Coenzyme A binding pocket [chemical binding]; other site 375286008287 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 375286008288 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 375286008289 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 375286008290 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286008291 active site 375286008292 phosphorylation site [posttranslational modification] 375286008293 intermolecular recognition site; other site 375286008294 dimerization interface [polypeptide binding]; other site 375286008295 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 375286008296 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 375286008297 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 375286008298 dimer interface [polypeptide binding]; other site 375286008299 phosphorylation site [posttranslational modification] 375286008300 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286008301 ATP binding site [chemical binding]; other site 375286008302 Mg2+ binding site [ion binding]; other site 375286008303 G-X-G motif; other site 375286008304 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 375286008305 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 375286008306 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 375286008307 Subunit I/III interface [polypeptide binding]; other site 375286008308 Subunit III/IV interface [polypeptide binding]; other site 375286008309 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 375286008310 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 375286008311 D-pathway; other site 375286008312 Putative ubiquinol binding site [chemical binding]; other site 375286008313 Low-spin heme (heme b) binding site [chemical binding]; other site 375286008314 Putative water exit pathway; other site 375286008315 Binuclear center (heme o3/CuB) [ion binding]; other site 375286008316 K-pathway; other site 375286008317 Putative proton exit pathway; other site 375286008318 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 375286008319 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 375286008320 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 375286008321 metabolite-proton symporter; Region: 2A0106; TIGR00883 375286008322 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 375286008323 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 375286008324 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 375286008325 putative substrate translocation pore; other site 375286008326 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 375286008327 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 375286008328 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 375286008329 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 375286008330 poly-beta-1,6-N-acetyl-D-glucosamine biosynthesis protein PgaD; Region: PGA_PgaD; TIGR03940 375286008331 N-glycosyltransferase; Provisional; Region: PRK11204 375286008332 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 375286008333 DXD motif; other site 375286008334 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 375286008335 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 375286008336 putative active site [active] 375286008337 putative metal binding site [ion binding]; other site 375286008338 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 375286008339 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 375286008340 binding surface 375286008341 TPR motif; other site 375286008342 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 375286008343 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 375286008344 oligomerisation interface [polypeptide binding]; other site 375286008345 mobile loop; other site 375286008346 roof hairpin; other site 375286008347 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 375286008348 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 375286008349 ring oligomerisation interface [polypeptide binding]; other site 375286008350 ATP/Mg binding site [chemical binding]; other site 375286008351 stacking interactions; other site 375286008352 hinge regions; other site 375286008353 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 375286008354 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 375286008355 GTP/Mg2+ binding site [chemical binding]; other site 375286008356 G4 box; other site 375286008357 G5 box; other site 375286008358 G1 box; other site 375286008359 Switch I region; other site 375286008360 G2 box; other site 375286008361 G3 box; other site 375286008362 Switch II region; other site 375286008363 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 375286008364 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 375286008365 Cl binding site [ion binding]; other site 375286008366 oligomer interface [polypeptide binding]; other site 375286008367 MoxR-like ATPases [General function prediction only]; Region: COG0714 375286008368 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 375286008369 Walker A motif; other site 375286008370 ATP binding site [chemical binding]; other site 375286008371 Walker B motif; other site 375286008372 arginine finger; other site 375286008373 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 375286008374 Protein of unknown function DUF58; Region: DUF58; pfam01882 375286008375 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 375286008376 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 375286008377 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 375286008378 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 375286008379 Transglycosylase SLT domain; Region: SLT_2; pfam13406 375286008380 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 375286008381 N-acetyl-D-glucosamine binding site [chemical binding]; other site 375286008382 YaeQ protein; Region: YaeQ; pfam07152 375286008383 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 375286008384 cysteine synthase B; Region: cysM; TIGR01138 375286008385 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 375286008386 dimer interface [polypeptide binding]; other site 375286008387 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286008388 catalytic residue [active] 375286008389 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 375286008390 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 375286008391 tetratricopeptide repeat protein; Provisional; Region: PRK11788 375286008392 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 375286008393 binding surface 375286008394 TPR motif; other site 375286008395 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 375286008396 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 375286008397 IHF dimer interface [polypeptide binding]; other site 375286008398 IHF - DNA interface [nucleotide binding]; other site 375286008399 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 375286008400 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 375286008401 RNA binding site [nucleotide binding]; other site 375286008402 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 375286008403 RNA binding site [nucleotide binding]; other site 375286008404 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 375286008405 RNA binding site [nucleotide binding]; other site 375286008406 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 375286008407 RNA binding site [nucleotide binding]; other site 375286008408 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 375286008409 RNA binding site [nucleotide binding]; other site 375286008410 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 375286008411 RNA binding site [nucleotide binding]; other site 375286008412 cytidylate kinase; Provisional; Region: cmk; PRK00023 375286008413 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 375286008414 CMP-binding site; other site 375286008415 The sites determining sugar specificity; other site 375286008416 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 375286008417 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 375286008418 hinge; other site 375286008419 active site 375286008420 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 375286008421 prephenate dehydrogenase; Validated; Region: PRK08507 375286008422 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 375286008423 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 375286008424 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286008425 homodimer interface [polypeptide binding]; other site 375286008426 catalytic residue [active] 375286008427 Chorismate mutase type II; Region: CM_2; smart00830 375286008428 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 375286008429 Prephenate dehydratase; Region: PDT; pfam00800 375286008430 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 375286008431 putative L-Phe binding site [chemical binding]; other site 375286008432 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 375286008433 homodimer interface [polypeptide binding]; other site 375286008434 substrate-cofactor binding pocket; other site 375286008435 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 375286008436 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286008437 catalytic residue [active] 375286008438 DNA gyrase subunit A; Validated; Region: PRK05560 375286008439 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 375286008440 CAP-like domain; other site 375286008441 active site 375286008442 primary dimer interface [polypeptide binding]; other site 375286008443 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 375286008444 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 375286008445 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 375286008446 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 375286008447 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 375286008448 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 375286008449 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 375286008450 ligand binding site [chemical binding]; other site 375286008451 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 375286008452 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 375286008453 ligand binding site [chemical binding]; other site 375286008454 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 375286008455 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 375286008456 S-adenosylmethionine binding site [chemical binding]; other site 375286008457 phosphoglycolate phosphatase; Provisional; Region: PRK13222 375286008458 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 375286008459 motif II; other site 375286008460 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 375286008461 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 375286008462 catalytic residues [active] 375286008463 catalytic nucleophile [active] 375286008464 Presynaptic Site I dimer interface [polypeptide binding]; other site 375286008465 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 375286008466 Synaptic Flat tetramer interface [polypeptide binding]; other site 375286008467 Synaptic Site I dimer interface [polypeptide binding]; other site 375286008468 DNA binding site [nucleotide binding] 375286008469 Recombinase; Region: Recombinase; pfam07508 375286008470 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 375286008471 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 375286008472 PIN domain; Region: PIN_3; pfam13470 375286008473 DNA binding domain, excisionase family; Region: excise; TIGR01764 375286008474 Helix-turn-helix domain; Region: HTH_17; cl17695 375286008475 AAA domain; Region: AAA_24; pfam13479 375286008476 P63C domain; Region: P63C; pfam10546 375286008477 hypothetical protein; Validated; Region: PRK07078 375286008478 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 375286008479 active site 375286008480 metal binding site [ion binding]; metal-binding site 375286008481 interdomain interaction site; other site 375286008482 D5 N terminal like; Region: D5_N; smart00885 375286008483 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; cl17280 375286008484 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 375286008485 ParB-like nuclease domain; Region: ParBc; pfam02195 375286008486 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 375286008487 DNA methylase; Region: N6_N4_Mtase; pfam01555 375286008488 ParB-like nuclease domain; Region: ParBc; pfam02195 375286008489 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 375286008490 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 375286008491 DNA methylase; Region: N6_N4_Mtase; pfam01555 375286008492 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 375286008493 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 375286008494 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 375286008495 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 375286008496 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 375286008497 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 375286008498 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 375286008499 tandem repeat interface [polypeptide binding]; other site 375286008500 oligomer interface [polypeptide binding]; other site 375286008501 active site residues [active] 375286008502 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 375286008503 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 375286008504 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 375286008505 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 375286008506 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 375286008507 Putative phage tail protein; Region: Phage-tail_3; pfam13550 375286008508 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 375286008509 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 375286008510 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 375286008511 catalytic residues [active] 375286008512 TIR domain; Region: TIR_2; pfam13676 375286008513 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 375286008514 Sir2-like: Prokaryotic group of uncharacterized Sir2-like proteins which lack certain key catalytic residues and conserved zinc binding cysteines; and are members of the SIR2 superfamily of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIR2-like; cd01406 375286008515 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 375286008516 Protein of unknown function (DUF499); Region: DUF499; pfam04465 375286008517 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 375286008518 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 375286008519 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 375286008520 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 375286008521 ATP binding site [chemical binding]; other site 375286008522 putative Mg++ binding site [ion binding]; other site 375286008523 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 375286008524 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 375286008525 nucleotide binding region [chemical binding]; other site 375286008526 ATP-binding site [chemical binding]; other site 375286008527 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 375286008528 Predicted transcriptional regulator [Transcription]; Region: COG2378 375286008529 WYL domain; Region: WYL; pfam13280 375286008530 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 375286008531 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 375286008532 catalytic residues [active] 375286008533 catalytic nucleophile [active] 375286008534 Presynaptic Site I dimer interface [polypeptide binding]; other site 375286008535 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 375286008536 Synaptic Flat tetramer interface [polypeptide binding]; other site 375286008537 Synaptic Site I dimer interface [polypeptide binding]; other site 375286008538 DNA binding site [nucleotide binding] 375286008539 Recombinase; Region: Recombinase; pfam07508 375286008540 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 375286008541 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 375286008542 Domain of unknown function (DUF955); Region: DUF955; cl01076 375286008543 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 375286008544 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 375286008545 non-specific DNA binding site [nucleotide binding]; other site 375286008546 salt bridge; other site 375286008547 sequence-specific DNA binding site [nucleotide binding]; other site 375286008548 Helix-turn-helix domain; Region: HTH_17; pfam12728 375286008549 AAA domain; Region: AAA_24; pfam13479 375286008550 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 375286008551 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 375286008552 ATP binding site [chemical binding]; other site 375286008553 putative Mg++ binding site [ion binding]; other site 375286008554 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 375286008555 nucleotide binding region [chemical binding]; other site 375286008556 ATP-binding site [chemical binding]; other site 375286008557 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 375286008558 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 375286008559 active site 375286008560 metal binding site [ion binding]; metal-binding site 375286008561 interdomain interaction site; other site 375286008562 AAA domain; Region: AAA_25; pfam13481 375286008563 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 375286008564 Walker A motif; other site 375286008565 ATP binding site [chemical binding]; other site 375286008566 Walker B motif; other site 375286008567 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 375286008568 ParB-like nuclease domain; Region: ParBc; pfam02195 375286008569 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 375286008570 DNA methylase; Region: N6_N4_Mtase; pfam01555 375286008571 ParB-like nuclease domain; Region: ParBc; pfam02195 375286008572 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 375286008573 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 375286008574 DNA methylase; Region: N6_N4_Mtase; pfam01555 375286008575 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 375286008576 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 375286008577 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 375286008578 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 375286008579 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 375286008580 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 375286008581 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 375286008582 tandem repeat interface [polypeptide binding]; other site 375286008583 oligomer interface [polypeptide binding]; other site 375286008584 active site residues [active] 375286008585 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 375286008586 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 375286008587 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 375286008588 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 375286008589 Putative phage tail protein; Region: Phage-tail_3; pfam13550 375286008590 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 375286008591 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 375286008592 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 375286008593 catalytic residues [active] 375286008594 Uncharacterized conserved protein [Function unknown]; Region: COG1479 375286008595 Protein of unknown function DUF262; Region: DUF262; pfam03235 375286008596 Uncharacterized conserved protein [Function unknown]; Region: COG3472 375286008597 Restriction endonuclease [Defense mechanisms]; Region: COG3587 375286008598 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 375286008599 Integrase core domain; Region: rve; pfam00665 375286008600 transposase/IS protein; Provisional; Region: PRK09183 375286008601 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 375286008602 Walker A motif; other site 375286008603 ATP binding site [chemical binding]; other site 375286008604 Walker B motif; other site 375286008605 arginine finger; other site 375286008606 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_c; cd10311 375286008607 putative active site [active] 375286008608 catalytic site [active] 375286008609 Predicted transcriptional regulator [Transcription]; Region: COG2378 375286008610 WYL domain; Region: WYL; pfam13280 375286008611 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 375286008612 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 375286008613 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 375286008614 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 375286008615 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 375286008616 DNA-binding interface [nucleotide binding]; DNA binding site 375286008617 Integrase core domain; Region: rve; pfam00665 375286008618 transposase/IS protein; Provisional; Region: PRK09183 375286008619 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 375286008620 Walker A motif; other site 375286008621 ATP binding site [chemical binding]; other site 375286008622 Walker B motif; other site 375286008623 arginine finger; other site 375286008624 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 375286008625 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 375286008626 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 375286008627 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 375286008628 catalytic residues [active] 375286008629 central insert; other site 375286008630 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 375286008631 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 375286008632 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 375286008633 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 375286008634 binding surface 375286008635 TPR motif; other site 375286008636 Cupin; Region: Cupin_6; pfam12852 375286008637 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375286008638 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 375286008639 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375286008640 Protein of unknown function, DUF417; Region: DUF417; cl01162 375286008641 transposase/IS protein; Provisional; Region: PRK09183 375286008642 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 375286008643 Walker A motif; other site 375286008644 ATP binding site [chemical binding]; other site 375286008645 Walker B motif; other site 375286008646 arginine finger; other site 375286008647 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 375286008648 Integrase core domain; Region: rve; pfam00665 375286008649 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 375286008650 lycopene cyclase; Region: lycopene_cycl; TIGR01789 375286008651 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 375286008652 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 375286008653 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 375286008654 Pirin-related protein [General function prediction only]; Region: COG1741 375286008655 Pirin; Region: Pirin; pfam02678 375286008656 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 375286008657 LysR family transcriptional regulator; Provisional; Region: PRK14997 375286008658 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286008659 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 375286008660 dimerization interface [polypeptide binding]; other site 375286008661 Isochorismatase family; Region: Isochorismatase; pfam00857 375286008662 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 375286008663 catalytic triad [active] 375286008664 conserved cis-peptide bond; other site 375286008665 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 375286008666 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 375286008667 gating phenylalanine in ion channel; other site 375286008668 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 375286008669 hydrophobic ligand binding site; other site 375286008670 Serine/threonine phosphatases, family 2C, catalytic domain; Region: PP2Cc; smart00332 375286008671 glutathione-dependent formaldehyde-activating enzyme; Provisional; Region: PRK05417 375286008672 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 375286008673 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 375286008674 conserved cys residue [active] 375286008675 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 375286008676 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286008677 active site 375286008678 phosphorylation site [posttranslational modification] 375286008679 intermolecular recognition site; other site 375286008680 dimerization interface [polypeptide binding]; other site 375286008681 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 375286008682 DNA binding site [nucleotide binding] 375286008683 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 375286008684 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 375286008685 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 375286008686 ligand binding site [chemical binding]; other site 375286008687 Domain of unknown function DUF11; Region: DUF11; pfam01345 375286008688 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 375286008689 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 375286008690 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 375286008691 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 375286008692 dimerization interface [polypeptide binding]; other site 375286008693 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375286008694 dimer interface [polypeptide binding]; other site 375286008695 putative CheW interface [polypeptide binding]; other site 375286008696 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 375286008697 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 375286008698 dimer interface [polypeptide binding]; other site 375286008699 ligand binding site [chemical binding]; other site 375286008700 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 375286008701 dimerization interface [polypeptide binding]; other site 375286008702 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375286008703 dimer interface [polypeptide binding]; other site 375286008704 putative CheW interface [polypeptide binding]; other site 375286008705 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 375286008706 putative CheA interaction surface; other site 375286008707 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 375286008708 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375286008709 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 375286008710 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 375286008711 FecR protein; Region: FecR; pfam04773 375286008712 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 375286008713 CHASE2 domain; Region: CHASE2; pfam05226 375286008714 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 375286008715 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 375286008716 putative active site [active] 375286008717 heme pocket [chemical binding]; other site 375286008718 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 375286008719 dimer interface [polypeptide binding]; other site 375286008720 phosphorylation site [posttranslational modification] 375286008721 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286008722 ATP binding site [chemical binding]; other site 375286008723 Mg2+ binding site [ion binding]; other site 375286008724 G-X-G motif; other site 375286008725 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 375286008726 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286008727 active site 375286008728 phosphorylation site [posttranslational modification] 375286008729 intermolecular recognition site; other site 375286008730 dimerization interface [polypeptide binding]; other site 375286008731 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 375286008732 DNA binding site [nucleotide binding] 375286008733 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 375286008734 putative active site [active] 375286008735 YdjC motif; other site 375286008736 Mg binding site [ion binding]; other site 375286008737 putative homodimer interface [polypeptide binding]; other site 375286008738 Predicted membrane protein [Function unknown]; Region: COG2246 375286008739 GtrA-like protein; Region: GtrA; pfam04138 375286008740 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 375286008741 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 375286008742 Ligand binding site; other site 375286008743 Putative Catalytic site; other site 375286008744 DXD motif; other site 375286008745 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 375286008746 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 375286008747 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 375286008748 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 375286008749 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 375286008750 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 375286008751 putative ATP binding site [chemical binding]; other site 375286008752 putative substrate interface [chemical binding]; other site 375286008753 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 375286008754 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 375286008755 active site 375286008756 methionine sulfoxide reductase A; Provisional; Region: PRK14054 375286008757 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 375286008758 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 375286008759 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 375286008760 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 375286008761 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 375286008762 ATP-grasp domain; Region: ATP-grasp; pfam02222 375286008763 AIR carboxylase; Region: AIRC; pfam00731 375286008764 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 375286008765 ATP binding site [chemical binding]; other site 375286008766 active site 375286008767 substrate binding site [chemical binding]; other site 375286008768 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 375286008769 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 375286008770 intersubunit interface [polypeptide binding]; other site 375286008771 active site 375286008772 zinc binding site [ion binding]; other site 375286008773 Na+ binding site [ion binding]; other site 375286008774 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 375286008775 Phosphoglycerate kinase; Region: PGK; pfam00162 375286008776 substrate binding site [chemical binding]; other site 375286008777 hinge regions; other site 375286008778 ADP binding site [chemical binding]; other site 375286008779 catalytic site [active] 375286008780 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 375286008781 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 375286008782 homodimer interface [polypeptide binding]; other site 375286008783 substrate-cofactor binding pocket; other site 375286008784 catalytic residue [active] 375286008785 Zinc-finger domain; Region: zf-CHCC; cl01821 375286008786 SnoaL-like domain; Region: SnoaL_3; pfam13474 375286008787 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 375286008788 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 375286008789 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 375286008790 Peptidase family M48; Region: Peptidase_M48; pfam01435 375286008791 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 375286008792 trimer interface [polypeptide binding]; other site 375286008793 dimer interface [polypeptide binding]; other site 375286008794 putative active site [active] 375286008795 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 375286008796 O-Antigen ligase; Region: Wzy_C; pfam04932 375286008797 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 375286008798 Pilin (bacterial filament); Region: Pilin; pfam00114 375286008799 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 375286008800 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 375286008801 phosphopeptide binding site; other site 375286008802 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 375286008803 Protein phosphatase 2C; Region: PP2C; pfam00481 375286008804 active site 375286008805 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 375286008806 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 375286008807 putative active site [active] 375286008808 Zn binding site [ion binding]; other site 375286008809 RecX family; Region: RecX; cl00936 375286008810 recombinase A; Provisional; Region: recA; PRK09354 375286008811 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 375286008812 hexamer interface [polypeptide binding]; other site 375286008813 Walker A motif; other site 375286008814 ATP binding site [chemical binding]; other site 375286008815 Walker B motif; other site 375286008816 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 375286008817 RNA/DNA hybrid binding site [nucleotide binding]; other site 375286008818 active site 375286008819 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 375286008820 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286008821 active site 375286008822 phosphorylation site [posttranslational modification] 375286008823 intermolecular recognition site; other site 375286008824 dimerization interface [polypeptide binding]; other site 375286008825 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 375286008826 DNA binding site [nucleotide binding] 375286008827 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 375286008828 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 375286008829 HAMP domain; Region: HAMP; pfam00672 375286008830 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 375286008831 dimer interface [polypeptide binding]; other site 375286008832 phosphorylation site [posttranslational modification] 375286008833 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286008834 ATP binding site [chemical binding]; other site 375286008835 Mg2+ binding site [ion binding]; other site 375286008836 G-X-G motif; other site 375286008837 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 375286008838 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 375286008839 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 375286008840 Uncharacterized conserved protein [Function unknown]; Region: COG2308 375286008841 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 375286008842 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 375286008843 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 375286008844 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 375286008845 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 375286008846 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 375286008847 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 375286008848 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 375286008849 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 375286008850 dimerization interface [polypeptide binding]; other site 375286008851 putative ATP binding site [chemical binding]; other site 375286008852 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 375286008853 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 375286008854 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 375286008855 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 375286008856 poly(A) polymerase; Region: pcnB; TIGR01942 375286008857 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 375286008858 active site 375286008859 NTP binding site [chemical binding]; other site 375286008860 metal binding triad [ion binding]; metal-binding site 375286008861 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 375286008862 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 375286008863 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 375286008864 catalytic center binding site [active] 375286008865 ATP binding site [chemical binding]; other site 375286008866 Protein of unknown function, DUF486; Region: DUF486; cl01236 375286008867 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 375286008868 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 375286008869 Substrate-binding site [chemical binding]; other site 375286008870 Substrate specificity [chemical binding]; other site 375286008871 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 375286008872 oligomerization interface [polypeptide binding]; other site 375286008873 active site 375286008874 metal binding site [ion binding]; metal-binding site 375286008875 Predicted metalloprotease [General function prediction only]; Region: COG2321 375286008876 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 375286008877 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 375286008878 active site clefts [active] 375286008879 zinc binding site [ion binding]; other site 375286008880 dimer interface [polypeptide binding]; other site 375286008881 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 375286008882 chaperone protein DnaJ; Provisional; Region: PRK10767 375286008883 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 375286008884 HSP70 interaction site [polypeptide binding]; other site 375286008885 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 375286008886 Zn binding sites [ion binding]; other site 375286008887 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 375286008888 dimer interface [polypeptide binding]; other site 375286008889 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 375286008890 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 375286008891 nucleotide binding site [chemical binding]; other site 375286008892 GrpE; Region: GrpE; pfam01025 375286008893 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 375286008894 dimer interface [polypeptide binding]; other site 375286008895 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 375286008896 ferrochelatase; Reviewed; Region: hemH; PRK00035 375286008897 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 375286008898 C-terminal domain interface [polypeptide binding]; other site 375286008899 active site 375286008900 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 375286008901 active site 375286008902 N-terminal domain interface [polypeptide binding]; other site 375286008903 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 375286008904 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 375286008905 Walker A/P-loop; other site 375286008906 ATP binding site [chemical binding]; other site 375286008907 Q-loop/lid; other site 375286008908 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 375286008909 ABC transporter signature motif; other site 375286008910 Walker B; other site 375286008911 D-loop; other site 375286008912 H-loop/switch region; other site 375286008913 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 375286008914 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 375286008915 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 375286008916 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 375286008917 motif II; other site 375286008918 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 375286008919 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 375286008920 ferric uptake regulator; Provisional; Region: fur; PRK09462 375286008921 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 375286008922 metal binding site 2 [ion binding]; metal-binding site 375286008923 putative DNA binding helix; other site 375286008924 metal binding site 1 [ion binding]; metal-binding site 375286008925 dimer interface [polypeptide binding]; other site 375286008926 structural Zn2+ binding site [ion binding]; other site 375286008927 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 375286008928 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 375286008929 dihydrodipicolinate reductase; Provisional; Region: PRK00048 375286008930 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 375286008931 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 375286008932 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 375286008933 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 375286008934 TolR protein; Region: tolR; TIGR02801 375286008935 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it, thus inhibiting its potentially lethal RNase activity inside the...; Region: Barstar_like; cd00489 375286008936 RNAase interaction site [polypeptide binding]; other site 375286008937 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 375286008938 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 375286008939 HIGH motif; other site 375286008940 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 375286008941 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 375286008942 active site 375286008943 KMSKS motif; other site 375286008944 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 375286008945 tRNA binding surface [nucleotide binding]; other site 375286008946 Lipopolysaccharide-assembly; Region: LptE; cl01125 375286008947 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 375286008948 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 375286008949 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 375286008950 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 375286008951 putative catalytic cysteine [active] 375286008952 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 375286008953 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 375286008954 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 375286008955 putative catalytic residue [active] 375286008956 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 375286008957 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 375286008958 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 375286008959 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 375286008960 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 375286008961 Predicted transcriptional regulator [Transcription]; Region: COG2378 375286008962 HTH domain; Region: HTH_11; pfam08279 375286008963 WYL domain; Region: WYL; pfam13280 375286008964 succinic semialdehyde dehydrogenase; Region: PLN02278 375286008965 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 375286008966 tetramerization interface [polypeptide binding]; other site 375286008967 NAD(P) binding site [chemical binding]; other site 375286008968 catalytic residues [active] 375286008969 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 375286008970 Major Facilitator Superfamily; Region: MFS_1; pfam07690 375286008971 putative substrate translocation pore; other site 375286008972 PAS domain S-box; Region: sensory_box; TIGR00229 375286008973 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 375286008974 putative active site [active] 375286008975 heme pocket [chemical binding]; other site 375286008976 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286008977 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286008978 metal binding site [ion binding]; metal-binding site 375286008979 active site 375286008980 I-site; other site 375286008981 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 375286008982 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 375286008983 dimer interface [polypeptide binding]; other site 375286008984 phosphorylation site [posttranslational modification] 375286008985 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286008986 ATP binding site [chemical binding]; other site 375286008987 Mg2+ binding site [ion binding]; other site 375286008988 G-X-G motif; other site 375286008989 Response regulator receiver domain; Region: Response_reg; pfam00072 375286008990 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286008991 active site 375286008992 phosphorylation site [posttranslational modification] 375286008993 intermolecular recognition site; other site 375286008994 dimerization interface [polypeptide binding]; other site 375286008995 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 375286008996 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286008997 active site 375286008998 phosphorylation site [posttranslational modification] 375286008999 intermolecular recognition site; other site 375286009000 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 375286009001 DNA binding residues [nucleotide binding] 375286009002 dimerization interface [polypeptide binding]; other site 375286009003 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 375286009004 TPR repeat; Region: TPR_11; pfam13414 375286009005 binding surface 375286009006 TPR motif; other site 375286009007 Protein of unknown function (DUF560); Region: DUF560; pfam04575 375286009008 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 375286009009 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 375286009010 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 375286009011 cytosine deaminase; Validated; Region: PRK07572 375286009012 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 375286009013 active site 375286009014 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 375286009015 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 375286009016 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 375286009017 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286009018 active site 375286009019 phosphorylation site [posttranslational modification] 375286009020 intermolecular recognition site; other site 375286009021 dimerization interface [polypeptide binding]; other site 375286009022 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 375286009023 DNA binding residues [nucleotide binding] 375286009024 dimerization interface [polypeptide binding]; other site 375286009025 PAS fold; Region: PAS_4; pfam08448 375286009026 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 375286009027 putative active site [active] 375286009028 heme pocket [chemical binding]; other site 375286009029 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 375286009030 Histidine kinase; Region: HisKA_3; pfam07730 375286009031 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286009032 ATP binding site [chemical binding]; other site 375286009033 Mg2+ binding site [ion binding]; other site 375286009034 G-X-G motif; other site 375286009035 Patatin-like phospholipase; Region: Patatin; pfam01734 375286009036 active site 375286009037 nucleophile elbow; other site 375286009038 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 375286009039 Ligand Binding Site [chemical binding]; other site 375286009040 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 375286009041 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 375286009042 sensor protein QseC; Provisional; Region: PRK10337 375286009043 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 375286009044 dimer interface [polypeptide binding]; other site 375286009045 phosphorylation site [posttranslational modification] 375286009046 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286009047 ATP binding site [chemical binding]; other site 375286009048 Mg2+ binding site [ion binding]; other site 375286009049 G-X-G motif; other site 375286009050 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 375286009051 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286009052 active site 375286009053 phosphorylation site [posttranslational modification] 375286009054 intermolecular recognition site; other site 375286009055 dimerization interface [polypeptide binding]; other site 375286009056 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 375286009057 DNA binding site [nucleotide binding] 375286009058 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 375286009059 Beta-lactamase; Region: Beta-lactamase; pfam00144 375286009060 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 375286009061 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 375286009062 Transcriptional regulators [Transcription]; Region: MarR; COG1846 375286009063 MarR family; Region: MarR; pfam01047 375286009064 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 375286009065 S-adenosylmethionine binding site [chemical binding]; other site 375286009066 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 375286009067 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 375286009068 ATP binding site [chemical binding]; other site 375286009069 putative Mg++ binding site [ion binding]; other site 375286009070 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 375286009071 nucleotide binding region [chemical binding]; other site 375286009072 ATP-binding site [chemical binding]; other site 375286009073 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 375286009074 HRDC domain; Region: HRDC; pfam00570 375286009075 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 375286009076 Flagellin N-methylase; Region: FliB; pfam03692 375286009077 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 375286009078 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 375286009079 S-adenosylmethionine binding site [chemical binding]; other site 375286009080 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 375286009081 active site residue [active] 375286009082 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 375286009083 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 375286009084 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375286009085 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 375286009086 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 375286009087 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 375286009088 HlyD family secretion protein; Region: HlyD_3; pfam13437 375286009089 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 375286009090 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 375286009091 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 375286009092 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 375286009093 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 375286009094 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 375286009095 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 375286009096 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 375286009097 active site 375286009098 substrate binding site [chemical binding]; other site 375286009099 metal binding site [ion binding]; metal-binding site 375286009100 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 375286009101 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 375286009102 active site 375286009103 metal binding site [ion binding]; metal-binding site 375286009104 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 375286009105 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 375286009106 putative acyl-acceptor binding pocket; other site 375286009107 dihydroorotase; Provisional; Region: PRK07627 375286009108 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 375286009109 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 375286009110 active site 375286009111 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 375286009112 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 375286009113 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 375286009114 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 375286009115 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 375286009116 active site 375286009117 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 375286009118 hypothetical protein; Validated; Region: PRK00228 375286009119 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 375286009120 DNA photolyase; Region: DNA_photolyase; pfam00875 375286009121 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 375286009122 putative binding surface; other site 375286009123 active site 375286009124 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 375286009125 putative binding surface; other site 375286009126 active site 375286009127 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 375286009128 putative binding surface; other site 375286009129 active site 375286009130 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 375286009131 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 375286009132 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286009133 ATP binding site [chemical binding]; other site 375286009134 Mg2+ binding site [ion binding]; other site 375286009135 G-X-G motif; other site 375286009136 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 375286009137 Response regulator receiver domain; Region: Response_reg; pfam00072 375286009138 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286009139 active site 375286009140 phosphorylation site [posttranslational modification] 375286009141 intermolecular recognition site; other site 375286009142 dimerization interface [polypeptide binding]; other site 375286009143 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 375286009144 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 375286009145 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375286009146 dimer interface [polypeptide binding]; other site 375286009147 putative CheW interface [polypeptide binding]; other site 375286009148 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 375286009149 Response regulator receiver domain; Region: Response_reg; pfam00072 375286009150 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286009151 active site 375286009152 phosphorylation site [posttranslational modification] 375286009153 intermolecular recognition site; other site 375286009154 dimerization interface [polypeptide binding]; other site 375286009155 Response regulator receiver domain; Region: Response_reg; pfam00072 375286009156 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286009157 active site 375286009158 phosphorylation site [posttranslational modification] 375286009159 intermolecular recognition site; other site 375286009160 dimerization interface [polypeptide binding]; other site 375286009161 Rubredoxin [Energy production and conversion]; Region: COG1773 375286009162 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 375286009163 iron binding site [ion binding]; other site 375286009164 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 375286009165 substrate binding site [chemical binding]; other site 375286009166 dimer interface [polypeptide binding]; other site 375286009167 ATP binding site [chemical binding]; other site 375286009168 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 375286009169 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 375286009170 inhibitor-cofactor binding pocket; inhibition site 375286009171 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286009172 catalytic residue [active] 375286009173 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 375286009174 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 375286009175 Cl binding site [ion binding]; other site 375286009176 oligomer interface [polypeptide binding]; other site 375286009177 Transglycosylase; Region: Transgly; cl17702 375286009178 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 375286009179 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 375286009180 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 375286009181 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 375286009182 shikimate binding site; other site 375286009183 NAD(P) binding site [chemical binding]; other site 375286009184 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 375286009185 TonB C terminal; Region: TonB_2; pfam13103 375286009186 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 375286009187 RNB domain; Region: RNB; pfam00773 375286009188 Chorismate lyase; Region: Chor_lyase; cl01230 375286009189 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 375286009190 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 375286009191 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 375286009192 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 375286009193 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 375286009194 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 375286009195 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 375286009196 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 375286009197 catalytic residues [active] 375286009198 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 375286009199 Dehydroquinase class II; Region: DHquinase_II; pfam01220 375286009200 active site 375286009201 trimer interface [polypeptide binding]; other site 375286009202 dimer interface [polypeptide binding]; other site 375286009203 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 375286009204 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 375286009205 carboxyltransferase (CT) interaction site; other site 375286009206 biotinylation site [posttranslational modification]; other site 375286009207 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 375286009208 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 375286009209 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 375286009210 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 375286009211 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 375286009212 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 375286009213 S-adenosylmethionine binding site [chemical binding]; other site 375286009214 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 375286009215 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 375286009216 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 375286009217 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 375286009218 substrate binding site [chemical binding]; other site 375286009219 ATP binding site [chemical binding]; other site 375286009220 YGGT family; Region: YGGT; pfam02325 375286009221 YGGT family; Region: YGGT; pfam02325 375286009222 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 375286009223 dimer interface [polypeptide binding]; other site 375286009224 putative radical transfer pathway; other site 375286009225 diiron center [ion binding]; other site 375286009226 tyrosyl radical; other site 375286009227 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 375286009228 ATP cone domain; Region: ATP-cone; pfam03477 375286009229 ATP cone domain; Region: ATP-cone; pfam03477 375286009230 Class I ribonucleotide reductase; Region: RNR_I; cd01679 375286009231 active site 375286009232 dimer interface [polypeptide binding]; other site 375286009233 catalytic residues [active] 375286009234 effector binding site; other site 375286009235 R2 peptide binding site; other site 375286009236 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 375286009237 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 375286009238 amidase catalytic site [active] 375286009239 substrate binding site [chemical binding]; other site 375286009240 Zn binding residues [ion binding]; other site 375286009241 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 375286009242 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286009243 active site 375286009244 phosphorylation site [posttranslational modification] 375286009245 intermolecular recognition site; other site 375286009246 dimerization interface [polypeptide binding]; other site 375286009247 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 375286009248 Walker A motif; other site 375286009249 ATP binding site [chemical binding]; other site 375286009250 Walker B motif; other site 375286009251 arginine finger; other site 375286009252 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 375286009253 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 375286009254 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 375286009255 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 375286009256 dimer interface [polypeptide binding]; other site 375286009257 phosphorylation site [posttranslational modification] 375286009258 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286009259 ATP binding site [chemical binding]; other site 375286009260 Mg2+ binding site [ion binding]; other site 375286009261 G-X-G motif; other site 375286009262 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 375286009263 signal recognition particle protein; Provisional; Region: PRK10867 375286009264 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 375286009265 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 375286009266 P loop; other site 375286009267 GTP binding site [chemical binding]; other site 375286009268 Signal peptide binding domain; Region: SRP_SPB; pfam02978 375286009269 SWIB/MDM2 domain; Region: SWIB; pfam02201 375286009270 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 375286009271 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 375286009272 N-acetyl-D-glucosamine binding site [chemical binding]; other site 375286009273 catalytic residue [active] 375286009274 prolyl-tRNA synthetase; Provisional; Region: PRK09194 375286009275 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 375286009276 dimer interface [polypeptide binding]; other site 375286009277 motif 1; other site 375286009278 active site 375286009279 motif 2; other site 375286009280 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 375286009281 putative deacylase active site [active] 375286009282 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 375286009283 active site 375286009284 motif 3; other site 375286009285 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 375286009286 anticodon binding site; other site 375286009287 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 375286009288 putative active site [active] 375286009289 Ap4A binding site [chemical binding]; other site 375286009290 nudix motif; other site 375286009291 putative metal binding site [ion binding]; other site 375286009292 CNP1-like family; Region: CNP1; pfam08750 375286009293 gamma-glutamyl kinase; Provisional; Region: PRK05429 375286009294 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 375286009295 nucleotide binding site [chemical binding]; other site 375286009296 homotetrameric interface [polypeptide binding]; other site 375286009297 putative phosphate binding site [ion binding]; other site 375286009298 putative allosteric binding site; other site 375286009299 PUA domain; Region: PUA; pfam01472 375286009300 GTPase CgtA; Reviewed; Region: obgE; PRK12299 375286009301 GTP1/OBG; Region: GTP1_OBG; pfam01018 375286009302 Obg GTPase; Region: Obg; cd01898 375286009303 G1 box; other site 375286009304 GTP/Mg2+ binding site [chemical binding]; other site 375286009305 Switch I region; other site 375286009306 G2 box; other site 375286009307 G3 box; other site 375286009308 Switch II region; other site 375286009309 G4 box; other site 375286009310 G5 box; other site 375286009311 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 375286009312 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 375286009313 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 375286009314 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 375286009315 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 375286009316 substrate binding pocket [chemical binding]; other site 375286009317 chain length determination region; other site 375286009318 substrate-Mg2+ binding site; other site 375286009319 catalytic residues [active] 375286009320 aspartate-rich region 1; other site 375286009321 active site lid residues [active] 375286009322 aspartate-rich region 2; other site 375286009323 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 375286009324 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 375286009325 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 375286009326 Walker A motif; other site 375286009327 ATP binding site [chemical binding]; other site 375286009328 Walker B motif; other site 375286009329 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 375286009330 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 375286009331 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 375286009332 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 375286009333 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 375286009334 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 375286009335 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 375286009336 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 375286009337 CoA-binding site [chemical binding]; other site 375286009338 ATP-binding [chemical binding]; other site 375286009339 hypothetical protein; Provisional; Region: PRK05287 375286009340 Domain of unknown function (DUF329); Region: DUF329; pfam03884 375286009341 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 375286009342 active site 375286009343 8-oxo-dGMP binding site [chemical binding]; other site 375286009344 nudix motif; other site 375286009345 metal binding site [ion binding]; metal-binding site 375286009346 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 375286009347 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 375286009348 Walker A motif; other site 375286009349 ATP binding site [chemical binding]; other site 375286009350 Walker B motif; other site 375286009351 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 375286009352 heterotetramer interface [polypeptide binding]; other site 375286009353 active site pocket [active] 375286009354 cleavage site 375286009355 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 375286009356 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 375286009357 SEC-C motif; Region: SEC-C; pfam02810 375286009358 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 375286009359 Peptidase family M23; Region: Peptidase_M23; pfam01551 375286009360 Protein of unknown function (DUF721); Region: DUF721; pfam05258 375286009361 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 375286009362 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 375286009363 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 375286009364 catalytic triad [active] 375286009365 dimer interface [polypeptide binding]; other site 375286009366 cell division protein FtsZ; Validated; Region: PRK09330 375286009367 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 375286009368 nucleotide binding site [chemical binding]; other site 375286009369 SulA interaction site; other site 375286009370 cell division protein FtsA; Region: ftsA; TIGR01174 375286009371 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 375286009372 nucleotide binding site [chemical binding]; other site 375286009373 Cell division protein FtsA; Region: FtsA; pfam14450 375286009374 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 375286009375 Cell division protein FtsQ; Region: FtsQ; pfam03799 375286009376 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 375286009377 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 375286009378 ATP-grasp domain; Region: ATP-grasp_4; cl17255 375286009379 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 375286009380 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 375286009381 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 375286009382 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 375286009383 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 375286009384 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 375286009385 active site 375286009386 homodimer interface [polypeptide binding]; other site 375286009387 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 375286009388 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 375286009389 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 375286009390 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 375286009391 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 375286009392 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 375286009393 Mg++ binding site [ion binding]; other site 375286009394 putative catalytic motif [active] 375286009395 putative substrate binding site [chemical binding]; other site 375286009396 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 375286009397 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 375286009398 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 375286009399 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 375286009400 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 375286009401 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 375286009402 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 375286009403 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 375286009404 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 375286009405 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 375286009406 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 375286009407 Cell division protein FtsL; Region: FtsL; pfam04999 375286009408 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 375286009409 MraW methylase family; Region: Methyltransf_5; cl17771 375286009410 cell division protein MraZ; Reviewed; Region: PRK00326 375286009411 MraZ protein; Region: MraZ; pfam02381 375286009412 MraZ protein; Region: MraZ; pfam02381 375286009413 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 375286009414 non-specific DNA binding site [nucleotide binding]; other site 375286009415 salt bridge; other site 375286009416 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 375286009417 sequence-specific DNA binding site [nucleotide binding]; other site 375286009418 dUTPase; Region: dUTPase_2; pfam08761 375286009419 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 375286009420 active site 375286009421 homodimer interface [polypeptide binding]; other site 375286009422 metal binding site [ion binding]; metal-binding site 375286009423 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 375286009424 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 375286009425 Integrase core domain; Region: rve; pfam00665 375286009426 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 375286009427 AAA domain; Region: AAA_22; pfam13401 375286009428 Bacterial TniB protein; Region: TniB; pfam05621 375286009429 TniQ; Region: TniQ; pfam06527 375286009430 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 375286009431 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 375286009432 putative active site [active] 375286009433 putative metal binding site [ion binding]; other site 375286009434 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 375286009435 catalytic site [active] 375286009436 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 375286009437 Helix-turn-helix domain; Region: HTH_38; pfam13936 375286009438 Homeodomain-like domain; Region: HTH_32; pfam13565 375286009439 Integrase core domain; Region: rve; pfam00665 375286009440 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 375286009441 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 375286009442 Walker A/P-loop; other site 375286009443 ATP binding site [chemical binding]; other site 375286009444 Q-loop/lid; other site 375286009445 ABC transporter signature motif; other site 375286009446 Walker B; other site 375286009447 D-loop; other site 375286009448 H-loop/switch region; other site 375286009449 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 375286009450 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 375286009451 substrate binding pocket [chemical binding]; other site 375286009452 membrane-bound complex binding site; other site 375286009453 hinge residues; other site 375286009454 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 375286009455 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286009456 dimer interface [polypeptide binding]; other site 375286009457 conserved gate region; other site 375286009458 putative PBP binding loops; other site 375286009459 ABC-ATPase subunit interface; other site 375286009460 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 375286009461 Thermostable Phosphite Dehydrogenase; Region: PTDH; cd12157 375286009462 homodimer interface [polypeptide binding]; other site 375286009463 ligand binding site [chemical binding]; other site 375286009464 NAD binding site [chemical binding]; other site 375286009465 catalytic site [active] 375286009466 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286009467 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286009468 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 375286009469 dimerization interface [polypeptide binding]; other site 375286009470 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 375286009471 Helix-turn-helix domain; Region: HTH_38; pfam13936 375286009472 Homeodomain-like domain; Region: HTH_32; pfam13565 375286009473 Integrase core domain; Region: rve; pfam00665 375286009474 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 375286009475 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 375286009476 Chromate transporter; Region: Chromate_transp; pfam02417 375286009477 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 375286009478 Outer membrane efflux protein; Region: OEP; pfam02321 375286009479 Outer membrane efflux protein; Region: OEP; pfam02321 375286009480 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 375286009481 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 375286009482 HlyD family secretion protein; Region: HlyD_3; pfam13437 375286009483 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 375286009484 hypothetical protein; Provisional; Region: PRK09272 375286009485 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 375286009486 Helix-turn-helix domain; Region: HTH_38; pfam13936 375286009487 Integrase core domain; Region: rve; pfam00665 375286009488 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 375286009489 Predicted transporter component [General function prediction only]; Region: COG2391 375286009490 Sulphur transport; Region: Sulf_transp; pfam04143 375286009491 Predicted transporter component [General function prediction only]; Region: COG2391 375286009492 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 375286009493 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 375286009494 dimerization interface [polypeptide binding]; other site 375286009495 putative DNA binding site [nucleotide binding]; other site 375286009496 putative Zn2+ binding site [ion binding]; other site 375286009497 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 375286009498 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 375286009499 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 375286009500 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 375286009501 dimer interface [polypeptide binding]; other site 375286009502 phosphorylation site [posttranslational modification] 375286009503 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286009504 ATP binding site [chemical binding]; other site 375286009505 Mg2+ binding site [ion binding]; other site 375286009506 G-X-G motif; other site 375286009507 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 375286009508 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286009509 active site 375286009510 phosphorylation site [posttranslational modification] 375286009511 intermolecular recognition site; other site 375286009512 dimerization interface [polypeptide binding]; other site 375286009513 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 375286009514 DNA binding site [nucleotide binding] 375286009515 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 375286009516 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 375286009517 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 375286009518 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 375286009519 DsbD alpha interface [polypeptide binding]; other site 375286009520 catalytic residues [active] 375286009521 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 375286009522 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 375286009523 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 375286009524 catalytic residues [active] 375286009525 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 375286009526 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 375286009527 dimerization domain [polypeptide binding]; other site 375286009528 dimer interface [polypeptide binding]; other site 375286009529 catalytic residues [active] 375286009530 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 375286009531 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 375286009532 Fasciclin domain; Region: Fasciclin; pfam02469 375286009533 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 375286009534 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375286009535 DNA-binding site [nucleotide binding]; DNA binding site 375286009536 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 375286009537 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286009538 homodimer interface [polypeptide binding]; other site 375286009539 catalytic residue [active] 375286009540 Cytochrome c; Region: Cytochrom_C; cl11414 375286009541 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 375286009542 Cytochrome c; Region: Cytochrom_C; cl11414 375286009543 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 375286009544 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 375286009545 Cytochrome c; Region: Cytochrom_C; pfam00034 375286009546 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 375286009547 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286009548 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 375286009549 dimerization interface [polypeptide binding]; other site 375286009550 substrate binding pocket [chemical binding]; other site 375286009551 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 375286009552 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 375286009553 metal binding site [ion binding]; metal-binding site 375286009554 substrate binding pocket [chemical binding]; other site 375286009555 Predicted amidohydrolase [General function prediction only]; Region: COG0388 375286009556 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 375286009557 putative active site [active] 375286009558 catalytic triad [active] 375286009559 putative dimer interface [polypeptide binding]; other site 375286009560 L-lactate permease; Region: Lactate_perm; cl00701 375286009561 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 375286009562 allophanate hydrolase; Provisional; Region: PRK08186 375286009563 Amidase; Region: Amidase; cl11426 375286009564 Transcriptional regulators [Transcription]; Region: FadR; COG2186 375286009565 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375286009566 DNA-binding site [nucleotide binding]; DNA binding site 375286009567 FCD domain; Region: FCD; pfam07729 375286009568 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 375286009569 active site 375286009570 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 375286009571 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 375286009572 conserved cys residue [active] 375286009573 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 375286009574 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 375286009575 conserved cys residue [active] 375286009576 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375286009577 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 375286009578 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 375286009579 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 375286009580 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 375286009581 Walker A/P-loop; other site 375286009582 ATP binding site [chemical binding]; other site 375286009583 Q-loop/lid; other site 375286009584 ABC transporter signature motif; other site 375286009585 Walker B; other site 375286009586 D-loop; other site 375286009587 H-loop/switch region; other site 375286009588 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 375286009589 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286009590 dimer interface [polypeptide binding]; other site 375286009591 conserved gate region; other site 375286009592 putative PBP binding loops; other site 375286009593 ABC-ATPase subunit interface; other site 375286009594 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 375286009595 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 375286009596 membrane-bound complex binding site; other site 375286009597 Cupin; Region: Cupin_6; pfam12852 375286009598 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 375286009599 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375286009600 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 375286009601 short chain dehydrogenase; Validated; Region: PRK08264 375286009602 NADP binding site [chemical binding]; other site 375286009603 active site 375286009604 steroid binding site; other site 375286009605 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 375286009606 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 375286009607 dimer interface [polypeptide binding]; other site 375286009608 active site 375286009609 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 375286009610 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 375286009611 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 375286009612 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 375286009613 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 375286009614 substrate binding site [chemical binding]; other site 375286009615 oxyanion hole (OAH) forming residues; other site 375286009616 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 375286009617 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 375286009618 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 375286009619 active site 375286009620 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 375286009621 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 375286009622 RNA binding surface [nucleotide binding]; other site 375286009623 RNA polymerase sigma factor; Provisional; Region: PRK12514 375286009624 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286009625 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 375286009626 DNA binding residues [nucleotide binding] 375286009627 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 375286009628 Anti-sigma-K factor rskA; Region: RskA; pfam10099 375286009629 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 375286009630 Major Facilitator Superfamily; Region: MFS_1; pfam07690 375286009631 putative substrate translocation pore; other site 375286009632 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 375286009633 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 375286009634 PLD-like domain; Region: PLDc_2; pfam13091 375286009635 putative active site [active] 375286009636 catalytic site [active] 375286009637 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 375286009638 PLD-like domain; Region: PLDc_2; pfam13091 375286009639 putative active site [active] 375286009640 catalytic site [active] 375286009641 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 375286009642 putative catalytic site [active] 375286009643 putative metal binding site [ion binding]; other site 375286009644 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 375286009645 nudix motif; other site 375286009646 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 375286009647 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 375286009648 dimer interface [polypeptide binding]; other site 375286009649 anticodon binding site; other site 375286009650 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 375286009651 homodimer interface [polypeptide binding]; other site 375286009652 motif 1; other site 375286009653 active site 375286009654 motif 2; other site 375286009655 GAD domain; Region: GAD; pfam02938 375286009656 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 375286009657 motif 3; other site 375286009658 Uncharacterized conserved protein [Function unknown]; Region: COG2928 375286009659 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 375286009660 Uncharacterized conserved protein [Function unknown]; Region: COG1359 375286009661 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 375286009662 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 375286009663 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 375286009664 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286009665 dimer interface [polypeptide binding]; other site 375286009666 conserved gate region; other site 375286009667 putative PBP binding loops; other site 375286009668 ABC-ATPase subunit interface; other site 375286009669 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286009670 dimer interface [polypeptide binding]; other site 375286009671 conserved gate region; other site 375286009672 putative PBP binding loops; other site 375286009673 ABC-ATPase subunit interface; other site 375286009674 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 375286009675 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375286009676 Walker A/P-loop; other site 375286009677 ATP binding site [chemical binding]; other site 375286009678 Q-loop/lid; other site 375286009679 ABC transporter signature motif; other site 375286009680 Walker B; other site 375286009681 D-loop; other site 375286009682 H-loop/switch region; other site 375286009683 TOBE domain; Region: TOBE_2; pfam08402 375286009684 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 375286009685 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 375286009686 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 375286009687 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 375286009688 SCP-2 sterol transfer family; Region: SCP2; pfam02036 375286009689 Tim44-like domain; Region: Tim44; pfam04280 375286009690 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 375286009691 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 375286009692 S-adenosylmethionine binding site [chemical binding]; other site 375286009693 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 375286009694 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 375286009695 HIT family signature motif; other site 375286009696 catalytic residue [active] 375286009697 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 375286009698 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 375286009699 FAD binding domain; Region: FAD_binding_4; pfam01565 375286009700 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 375286009701 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 375286009702 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 375286009703 Cysteine-rich domain; Region: CCG; pfam02754 375286009704 Cysteine-rich domain; Region: CCG; pfam02754 375286009705 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 375286009706 Predicted membrane protein [Function unknown]; Region: COG1238 375286009707 threonine dehydratase; Reviewed; Region: PRK09224 375286009708 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 375286009709 tetramer interface [polypeptide binding]; other site 375286009710 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286009711 catalytic residue [active] 375286009712 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 375286009713 putative Ile/Val binding site [chemical binding]; other site 375286009714 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 375286009715 putative Ile/Val binding site [chemical binding]; other site 375286009716 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 375286009717 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 375286009718 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 375286009719 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 375286009720 active site 375286009721 phosphorylation site [posttranslational modification] 375286009722 HPr kinase/phosphorylase; Provisional; Region: PRK05428 375286009723 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 375286009724 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 375286009725 Hpr binding site; other site 375286009726 active site 375286009727 homohexamer subunit interaction site [polypeptide binding]; other site 375286009728 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 375286009729 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 375286009730 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 375286009731 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 375286009732 minor groove reading motif; other site 375286009733 helix-hairpin-helix signature motif; other site 375286009734 substrate binding pocket [chemical binding]; other site 375286009735 active site 375286009736 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 375286009737 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 375286009738 DNA binding and oxoG recognition site [nucleotide binding] 375286009739 Dynamin family; Region: Dynamin_N; pfam00350 375286009740 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 375286009741 G1 box; other site 375286009742 GTP/Mg2+ binding site [chemical binding]; other site 375286009743 G2 box; other site 375286009744 Switch I region; other site 375286009745 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 375286009746 G3 box; other site 375286009747 Switch II region; other site 375286009748 GTP/Mg2+ binding site [chemical binding]; other site 375286009749 G4 box; other site 375286009750 G5 box; other site 375286009751 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 375286009752 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 375286009753 DNA binding site [nucleotide binding] 375286009754 catalytic residue [active] 375286009755 H2TH interface [polypeptide binding]; other site 375286009756 putative catalytic residues [active] 375286009757 turnover-facilitating residue; other site 375286009758 intercalation triad [nucleotide binding]; other site 375286009759 8OG recognition residue [nucleotide binding]; other site 375286009760 putative reading head residues; other site 375286009761 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 375286009762 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 375286009763 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 375286009764 TPR motif; other site 375286009765 binding surface 375286009766 Tetratricopeptide repeat; Region: TPR_16; pfam13432 375286009767 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 375286009768 TPR motif; other site 375286009769 binding surface 375286009770 TPR repeat; Region: TPR_11; pfam13414 375286009771 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 375286009772 binding surface 375286009773 TPR motif; other site 375286009774 Tetratricopeptide repeat; Region: TPR_12; pfam13424 375286009775 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 375286009776 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 375286009777 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 375286009778 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 375286009779 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 375286009780 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 375286009781 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 375286009782 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 375286009783 active site 375286009784 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 375286009785 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 375286009786 5S rRNA interface [nucleotide binding]; other site 375286009787 CTC domain interface [polypeptide binding]; other site 375286009788 L16 interface [polypeptide binding]; other site 375286009789 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 375286009790 putative active site [active] 375286009791 catalytic residue [active] 375286009792 GTP-binding protein YchF; Reviewed; Region: PRK09601 375286009793 YchF GTPase; Region: YchF; cd01900 375286009794 G1 box; other site 375286009795 GTP/Mg2+ binding site [chemical binding]; other site 375286009796 Switch I region; other site 375286009797 G2 box; other site 375286009798 Switch II region; other site 375286009799 G3 box; other site 375286009800 G4 box; other site 375286009801 G5 box; other site 375286009802 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 375286009803 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 375286009804 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 375286009805 MOSC domain; Region: MOSC; pfam03473 375286009806 Protein of unknown function, DUF484; Region: DUF484; cl17449 375286009807 GAF domain; Region: GAF_2; pfam13185 375286009808 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286009809 metal binding site [ion binding]; metal-binding site 375286009810 active site 375286009811 I-site; other site 375286009812 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 375286009813 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 375286009814 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 375286009815 active site 375286009816 (T/H)XGH motif; other site 375286009817 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 375286009818 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 375286009819 S-adenosylmethionine binding site [chemical binding]; other site 375286009820 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 375286009821 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 375286009822 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 375286009823 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 375286009824 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 375286009825 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 375286009826 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 375286009827 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 375286009828 P loop; other site 375286009829 GTP binding site [chemical binding]; other site 375286009830 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 375286009831 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 375286009832 Walker A/P-loop; other site 375286009833 ATP binding site [chemical binding]; other site 375286009834 Q-loop/lid; other site 375286009835 ABC transporter signature motif; other site 375286009836 Walker B; other site 375286009837 D-loop; other site 375286009838 H-loop/switch region; other site 375286009839 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 375286009840 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 375286009841 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 375286009842 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 375286009843 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286009844 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 375286009845 DNA binding residues [nucleotide binding] 375286009846 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 375286009847 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 375286009848 Cu(I) binding site [ion binding]; other site 375286009849 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 375286009850 UbiA prenyltransferase family; Region: UbiA; pfam01040 375286009851 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 375286009852 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 375286009853 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 375286009854 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 375286009855 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 375286009856 Subunit III/VIIa interface [polypeptide binding]; other site 375286009857 Phospholipid binding site [chemical binding]; other site 375286009858 Subunit I/III interface [polypeptide binding]; other site 375286009859 Subunit III/VIb interface [polypeptide binding]; other site 375286009860 Subunit III/VIa interface; other site 375286009861 Subunit III/Vb interface [polypeptide binding]; other site 375286009862 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 375286009863 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 375286009864 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 375286009865 Subunit I/III interface [polypeptide binding]; other site 375286009866 D-pathway; other site 375286009867 Subunit I/VIIc interface [polypeptide binding]; other site 375286009868 Subunit I/IV interface [polypeptide binding]; other site 375286009869 Subunit I/II interface [polypeptide binding]; other site 375286009870 Low-spin heme (heme a) binding site [chemical binding]; other site 375286009871 Subunit I/VIIa interface [polypeptide binding]; other site 375286009872 Subunit I/VIa interface [polypeptide binding]; other site 375286009873 Dimer interface; other site 375286009874 Putative water exit pathway; other site 375286009875 Binuclear center (heme a3/CuB) [ion binding]; other site 375286009876 K-pathway; other site 375286009877 Subunit I/Vb interface [polypeptide binding]; other site 375286009878 Putative proton exit pathway; other site 375286009879 Subunit I/VIb interface; other site 375286009880 Subunit I/VIc interface [polypeptide binding]; other site 375286009881 Electron transfer pathway; other site 375286009882 Subunit I/VIIIb interface [polypeptide binding]; other site 375286009883 Subunit I/VIIb interface [polypeptide binding]; other site 375286009884 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 375286009885 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 375286009886 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 375286009887 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 375286009888 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 375286009889 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 375286009890 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 375286009891 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 375286009892 S-adenosylmethionine binding site [chemical binding]; other site 375286009893 DNA utilization protein GntX; Provisional; Region: PRK11595 375286009894 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 375286009895 DNA phosphorothioation-associated DGQHR protein 1; Region: DGQHR_dnd_1; TIGR04172 375286009896 DGQHR domain; Region: DGQHR; TIGR03187 375286009897 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 375286009898 Restriction endonuclease; Region: Mrr_cat; pfam04471 375286009899 HNH endonuclease; Region: HNH_5; pfam14279 375286009900 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375286009901 Walker A/P-loop; other site 375286009902 ATP binding site [chemical binding]; other site 375286009903 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 375286009904 Walker B; other site 375286009905 D-loop; other site 375286009906 H-loop/switch region; other site 375286009907 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 375286009908 active site 375286009909 catalytic residues [active] 375286009910 DNA binding site [nucleotide binding] 375286009911 Int/Topo IB signature motif; other site 375286009912 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 375286009913 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 375286009914 catalytic residues [active] 375286009915 catalytic nucleophile [active] 375286009916 Recombinase; Region: Recombinase; pfam07508 375286009917 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 375286009918 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 375286009919 Protein of unknown function (DUF461); Region: DUF461; pfam04314 375286009920 Protein of unknown function, DUF; Region: DUF411; cl01142 375286009921 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 375286009922 dinuclear metal binding motif [ion binding]; other site 375286009923 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 375286009924 catalytic residues [active] 375286009925 dimer interface [polypeptide binding]; other site 375286009926 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 375286009927 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286009928 active site 375286009929 phosphorylation site [posttranslational modification] 375286009930 intermolecular recognition site; other site 375286009931 dimerization interface [polypeptide binding]; other site 375286009932 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 375286009933 DNA binding site [nucleotide binding] 375286009934 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 375286009935 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 375286009936 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 375286009937 dimer interface [polypeptide binding]; other site 375286009938 phosphorylation site [posttranslational modification] 375286009939 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286009940 ATP binding site [chemical binding]; other site 375286009941 Mg2+ binding site [ion binding]; other site 375286009942 G-X-G motif; other site 375286009943 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 375286009944 ProQ/FINO family; Region: ProQ; smart00945 375286009945 putative RNA binding sites [nucleotide binding]; other site 375286009946 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 375286009947 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 375286009948 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 375286009949 putative substrate translocation pore; other site 375286009950 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 375286009951 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 375286009952 putative ligand binding site [chemical binding]; other site 375286009953 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 375286009954 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 375286009955 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 375286009956 Ligand Binding Site [chemical binding]; other site 375286009957 L-lactate permease; Region: Lactate_perm; cl00701 375286009958 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 375286009959 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 375286009960 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 375286009961 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 375286009962 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 375286009963 active site 375286009964 NTP binding site [chemical binding]; other site 375286009965 metal binding triad [ion binding]; metal-binding site 375286009966 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 375286009967 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 375286009968 Zn2+ binding site [ion binding]; other site 375286009969 Mg2+ binding site [ion binding]; other site 375286009970 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 375286009971 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 375286009972 putative C-terminal domain interface [polypeptide binding]; other site 375286009973 putative GSH binding site (G-site) [chemical binding]; other site 375286009974 putative dimer interface [polypeptide binding]; other site 375286009975 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 375286009976 putative N-terminal domain interface [polypeptide binding]; other site 375286009977 putative dimer interface [polypeptide binding]; other site 375286009978 putative substrate binding pocket (H-site) [chemical binding]; other site 375286009979 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 375286009980 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 375286009981 N-acetyl-D-glucosamine binding site [chemical binding]; other site 375286009982 catalytic residue [active] 375286009983 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 375286009984 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 375286009985 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 375286009986 FAD binding site [chemical binding]; other site 375286009987 Membrane protein of unknown function; Region: DUF360; pfam04020 375286009988 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 375286009989 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 375286009990 homotetramer interface [polypeptide binding]; other site 375286009991 ligand binding site [chemical binding]; other site 375286009992 catalytic site [active] 375286009993 NAD binding site [chemical binding]; other site 375286009994 Peptidase M14-like domain of Escherichia coli Murein Peptide Amidase A and related proteins; Region: M14_MpaA_like; cd06904 375286009995 putative active site [active] 375286009996 Zn binding site [ion binding]; other site 375286009997 S-adenosylmethionine synthetase; Validated; Region: PRK05250 375286009998 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 375286009999 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 375286010000 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 375286010001 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 375286010002 putative acyl-acceptor binding pocket; other site 375286010003 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 375286010004 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 375286010005 putative acyl-acceptor binding pocket; other site 375286010006 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 375286010007 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 375286010008 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 375286010009 Protein of unknown function, DUF484; Region: DUF484; cl17449 375286010010 GAF domain; Region: GAF_2; pfam13185 375286010011 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 375286010012 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 375286010013 active site 375286010014 DNA binding site [nucleotide binding] 375286010015 Int/Topo IB signature motif; other site 375286010016 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 375286010017 metal binding site 2 [ion binding]; metal-binding site 375286010018 putative DNA binding helix; other site 375286010019 metal binding site 1 [ion binding]; metal-binding site 375286010020 dimer interface [polypeptide binding]; other site 375286010021 structural Zn2+ binding site [ion binding]; other site 375286010022 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 375286010023 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 375286010024 P-loop, Walker A motif; other site 375286010025 Base recognition motif; other site 375286010026 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 375286010027 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 375286010028 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 375286010029 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 375286010030 Walker A/P-loop; other site 375286010031 ATP binding site [chemical binding]; other site 375286010032 Q-loop/lid; other site 375286010033 ABC transporter signature motif; other site 375286010034 Walker B; other site 375286010035 D-loop; other site 375286010036 H-loop/switch region; other site 375286010037 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 375286010038 FtsX-like permease family; Region: FtsX; pfam02687 375286010039 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 375286010040 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 375286010041 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 375286010042 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 375286010043 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 375286010044 active site 375286010045 HslU subunit interaction site [polypeptide binding]; other site 375286010046 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 375286010047 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 375286010048 Walker A motif; other site 375286010049 ATP binding site [chemical binding]; other site 375286010050 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 375286010051 Walker B motif; other site 375286010052 arginine finger; other site 375286010053 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 375286010054 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 375286010055 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 375286010056 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 375286010057 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 375286010058 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 375286010059 preprotein translocase subunit SecB; Validated; Region: PRK05751 375286010060 SecA binding site; other site 375286010061 Preprotein binding site; other site 375286010062 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 375286010063 GSH binding site [chemical binding]; other site 375286010064 catalytic residues [active] 375286010065 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 375286010066 active site residue [active] 375286010067 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 375286010068 catalytic core [active] 375286010069 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 375286010070 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 375286010071 Peptidase family M23; Region: Peptidase_M23; pfam01551 375286010072 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 375286010073 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 375286010074 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 375286010075 protein binding site [polypeptide binding]; other site 375286010076 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 375286010077 Catalytic dyad [active] 375286010078 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 375286010079 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 375286010080 ATP binding site [chemical binding]; other site 375286010081 substrate interface [chemical binding]; other site 375286010082 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 375286010083 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 375286010084 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 375286010085 dimer interface [polypeptide binding]; other site 375286010086 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 375286010087 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286010088 active site 375286010089 phosphorylation site [posttranslational modification] 375286010090 intermolecular recognition site; other site 375286010091 dimerization interface [polypeptide binding]; other site 375286010092 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 375286010093 DNA binding site [nucleotide binding] 375286010094 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 375286010095 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 375286010096 dimerization interface [polypeptide binding]; other site 375286010097 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 375286010098 dimer interface [polypeptide binding]; other site 375286010099 phosphorylation site [posttranslational modification] 375286010100 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286010101 ATP binding site [chemical binding]; other site 375286010102 Mg2+ binding site [ion binding]; other site 375286010103 G-X-G motif; other site 375286010104 aminodeoxychorismate synthase; Provisional; Region: PRK07508 375286010105 chorismate binding enzyme; Region: Chorismate_bind; cl10555 375286010106 hypothetical protein; Provisional; Region: PRK07546 375286010107 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 375286010108 substrate-cofactor binding pocket; other site 375286010109 homodimer interface [polypeptide binding]; other site 375286010110 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286010111 catalytic residue [active] 375286010112 division inhibitor protein; Provisional; Region: slmA; PRK09480 375286010113 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375286010114 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 375286010115 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 375286010116 motif II; other site 375286010117 TraB family; Region: TraB; pfam01963 375286010118 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286010119 metal binding site [ion binding]; metal-binding site 375286010120 active site 375286010121 I-site; other site 375286010122 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 375286010123 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 375286010124 feedback inhibition sensing region; other site 375286010125 homohexameric interface [polypeptide binding]; other site 375286010126 nucleotide binding site [chemical binding]; other site 375286010127 N-acetyl-L-glutamate binding site [chemical binding]; other site 375286010128 RNA polymerase sigma factor; Provisional; Region: PRK12520 375286010129 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286010130 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 375286010131 DNA binding residues [nucleotide binding] 375286010132 Putative zinc-finger; Region: zf-HC2; pfam13490 375286010133 Sporulation related domain; Region: SPOR; pfam05036 375286010134 pantothenate kinase; Reviewed; Region: PRK13328 375286010135 biotin--protein ligase; Provisional; Region: PRK06955 375286010136 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 375286010137 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 375286010138 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 375286010139 Permease; Region: Permease; pfam02405 375286010140 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 375286010141 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375286010142 Walker A/P-loop; other site 375286010143 ATP binding site [chemical binding]; other site 375286010144 Q-loop/lid; other site 375286010145 ABC transporter signature motif; other site 375286010146 Walker B; other site 375286010147 D-loop; other site 375286010148 H-loop/switch region; other site 375286010149 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 375286010150 mce related protein; Region: MCE; pfam02470 375286010151 Protein of unknown function (DUF330); Region: DUF330; cl01135 375286010152 Predicted integral membrane protein [Function unknown]; Region: COG5652 375286010153 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 375286010154 dimer interface [polypeptide binding]; other site 375286010155 [2Fe-2S] cluster binding site [ion binding]; other site 375286010156 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 375286010157 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 375286010158 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 375286010159 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 375286010160 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 375286010161 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 375286010162 homodimer interface [polypeptide binding]; other site 375286010163 substrate-cofactor binding pocket; other site 375286010164 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286010165 catalytic residue [active] 375286010166 Protein of unknown function (DUF493); Region: DUF493; cl01102 375286010167 lipoate-protein ligase B; Provisional; Region: PRK14343 375286010168 lipoyl synthase; Provisional; Region: PRK05481 375286010169 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 375286010170 FeS/SAM binding site; other site 375286010171 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 375286010172 metabolite-proton symporter; Region: 2A0106; TIGR00883 375286010173 putative substrate translocation pore; other site 375286010174 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 375286010175 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 375286010176 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 375286010177 Walker A/P-loop; other site 375286010178 ATP binding site [chemical binding]; other site 375286010179 Q-loop/lid; other site 375286010180 ABC transporter signature motif; other site 375286010181 Walker B; other site 375286010182 D-loop; other site 375286010183 H-loop/switch region; other site 375286010184 Predicted integral membrane protein [Function unknown]; Region: COG5615 375286010185 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 375286010186 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 375286010187 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 375286010188 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 375286010189 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 375286010190 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 375286010191 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 375286010192 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 375286010193 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 375286010194 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 375286010195 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 375286010196 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 375286010197 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 375286010198 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 375286010199 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 375286010200 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 375286010201 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 375286010202 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 375286010203 RNA binding site [nucleotide binding]; other site 375286010204 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 375286010205 putative GSH binding site [chemical binding]; other site 375286010206 catalytic residues [active] 375286010207 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 375286010208 Flavoprotein; Region: Flavoprotein; pfam02441 375286010209 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 375286010210 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 375286010211 dimerization interface [polypeptide binding]; other site 375286010212 ligand binding site [chemical binding]; other site 375286010213 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 375286010214 stringent starvation protein A; Provisional; Region: sspA; PRK09481 375286010215 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 375286010216 C-terminal domain interface [polypeptide binding]; other site 375286010217 putative GSH binding site (G-site) [chemical binding]; other site 375286010218 dimer interface [polypeptide binding]; other site 375286010219 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 375286010220 dimer interface [polypeptide binding]; other site 375286010221 N-terminal domain interface [polypeptide binding]; other site 375286010222 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 375286010223 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 375286010224 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 375286010225 Qi binding site; other site 375286010226 intrachain domain interface; other site 375286010227 interchain domain interface [polypeptide binding]; other site 375286010228 heme bH binding site [chemical binding]; other site 375286010229 heme bL binding site [chemical binding]; other site 375286010230 Qo binding site; other site 375286010231 interchain domain interface [polypeptide binding]; other site 375286010232 intrachain domain interface; other site 375286010233 Qi binding site; other site 375286010234 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 375286010235 Qo binding site; other site 375286010236 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 375286010237 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 375286010238 [2Fe-2S] cluster binding site [ion binding]; other site 375286010239 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 375286010240 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 375286010241 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 375286010242 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286010243 active site 375286010244 phosphorylation site [posttranslational modification] 375286010245 intermolecular recognition site; other site 375286010246 dimerization interface [polypeptide binding]; other site 375286010247 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 375286010248 DNA binding residues [nucleotide binding] 375286010249 dimerization interface [polypeptide binding]; other site 375286010250 Uncharacterized conserved protein [Function unknown]; Region: COG0327 375286010251 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 375286010252 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 375286010253 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 375286010254 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 375286010255 protein binding site [polypeptide binding]; other site 375286010256 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 375286010257 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 375286010258 sec-independent translocase; Provisional; Region: tatB; PRK01919 375286010259 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 375286010260 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 375286010261 nucleotide binding site/active site [active] 375286010262 HIT family signature motif; other site 375286010263 catalytic residue [active] 375286010264 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 375286010265 metal binding site [ion binding]; metal-binding site 375286010266 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 375286010267 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 375286010268 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 375286010269 substrate binding site [chemical binding]; other site 375286010270 glutamase interaction surface [polypeptide binding]; other site 375286010271 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 375286010272 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 375286010273 catalytic residues [active] 375286010274 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 375286010275 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 375286010276 putative active site [active] 375286010277 oxyanion strand; other site 375286010278 catalytic triad [active] 375286010279 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 375286010280 putative active site pocket [active] 375286010281 4-fold oligomerization interface [polypeptide binding]; other site 375286010282 metal binding residues [ion binding]; metal-binding site 375286010283 3-fold/trimer interface [polypeptide binding]; other site 375286010284 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 375286010285 DNA methylase; Region: N6_N4_Mtase; pfam01555 375286010286 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 375286010287 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 375286010288 NAD binding site [chemical binding]; other site 375286010289 dimerization interface [polypeptide binding]; other site 375286010290 product binding site; other site 375286010291 substrate binding site [chemical binding]; other site 375286010292 zinc binding site [ion binding]; other site 375286010293 catalytic residues [active] 375286010294 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 375286010295 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 375286010296 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 375286010297 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 375286010298 hinge; other site 375286010299 active site 375286010300 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 375286010301 ABC-2 type transporter; Region: ABC2_membrane; cl17235 375286010302 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 375286010303 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 375286010304 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 375286010305 Walker A/P-loop; other site 375286010306 ATP binding site [chemical binding]; other site 375286010307 Q-loop/lid; other site 375286010308 ABC transporter signature motif; other site 375286010309 Walker B; other site 375286010310 D-loop; other site 375286010311 H-loop/switch region; other site 375286010312 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 375286010313 anti sigma factor interaction site; other site 375286010314 regulatory phosphorylation site [posttranslational modification]; other site 375286010315 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 375286010316 VacJ like lipoprotein; Region: VacJ; cl01073 375286010317 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 375286010318 mce related protein; Region: MCE; pfam02470 375286010319 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 375286010320 Permease; Region: Permease; pfam02405 375286010321 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 375286010322 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 375286010323 Walker A/P-loop; other site 375286010324 ATP binding site [chemical binding]; other site 375286010325 Q-loop/lid; other site 375286010326 ABC transporter signature motif; other site 375286010327 Walker B; other site 375286010328 D-loop; other site 375286010329 H-loop/switch region; other site 375286010330 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 375286010331 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 375286010332 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 375286010333 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 375286010334 active site 375286010335 dimer interface [polypeptide binding]; other site 375286010336 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 375286010337 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 375286010338 active site 375286010339 FMN binding site [chemical binding]; other site 375286010340 substrate binding site [chemical binding]; other site 375286010341 3Fe-4S cluster binding site [ion binding]; other site 375286010342 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 375286010343 domain interface; other site 375286010344 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 375286010345 HDOD domain; Region: HDOD; pfam08668 375286010346 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 375286010347 PAS fold; Region: PAS_4; pfam08448 375286010348 putative active site [active] 375286010349 heme pocket [chemical binding]; other site 375286010350 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286010351 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286010352 metal binding site [ion binding]; metal-binding site 375286010353 active site 375286010354 I-site; other site 375286010355 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 375286010356 LysR family transcriptional regulator; Provisional; Region: PRK14997 375286010357 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286010358 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 375286010359 putative effector binding pocket; other site 375286010360 putative dimerization interface [polypeptide binding]; other site 375286010361 Pirin-related protein [General function prediction only]; Region: COG1741 375286010362 Pirin; Region: Pirin; pfam02678 375286010363 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 375286010364 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 375286010365 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 375286010366 Walker A motif; other site 375286010367 ATP binding site [chemical binding]; other site 375286010368 Walker B motif; other site 375286010369 arginine finger; other site 375286010370 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 375286010371 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 375286010372 Predicted membrane protein [Function unknown]; Region: COG4655 375286010373 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 375286010374 TPR repeat; Region: TPR_11; pfam13414 375286010375 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 375286010376 binding surface 375286010377 TPR motif; other site 375286010378 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 375286010379 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 375286010380 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 375286010381 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 375286010382 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 375286010383 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 375286010384 ATP binding site [chemical binding]; other site 375286010385 Walker A motif; other site 375286010386 hexamer interface [polypeptide binding]; other site 375286010387 Walker B motif; other site 375286010388 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 375286010389 active site 375286010390 phosphorylation site [posttranslational modification] 375286010391 AAA domain; Region: AAA_31; pfam13614 375286010392 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 375286010393 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 375286010394 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 375286010395 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 375286010396 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 375286010397 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 375286010398 TadE-like protein; Region: TadE; pfam07811 375286010399 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 375286010400 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 375286010401 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 375286010402 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 375286010403 Surface antigen; Region: Bac_surface_Ag; pfam01103 375286010404 MltA-interacting protein MipA; Region: MipA; cl01504 375286010405 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 375286010406 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 375286010407 putative substrate translocation pore; other site 375286010408 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 375286010409 dimerization interface [polypeptide binding]; other site 375286010410 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286010411 ATP binding site [chemical binding]; other site 375286010412 Mg2+ binding site [ion binding]; other site 375286010413 G-X-G motif; other site 375286010414 osmolarity response regulator; Provisional; Region: ompR; PRK09468 375286010415 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286010416 active site 375286010417 phosphorylation site [posttranslational modification] 375286010418 intermolecular recognition site; other site 375286010419 dimerization interface [polypeptide binding]; other site 375286010420 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 375286010421 DNA binding site [nucleotide binding] 375286010422 Uncharacterized conserved protein [Function unknown]; Region: COG3791 375286010423 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 375286010424 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 375286010425 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 375286010426 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 375286010427 catalytic residues [active] 375286010428 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 375286010429 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 375286010430 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 375286010431 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 375286010432 Epoxide hydrolase N terminus; Region: EHN; pfam06441 375286010433 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 375286010434 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 375286010435 Uncharacterized conserved protein [Function unknown]; Region: COG2128 375286010436 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 375286010437 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 375286010438 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 375286010439 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 375286010440 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 375286010441 metal binding site [ion binding]; metal-binding site 375286010442 putative dimer interface [polypeptide binding]; other site 375286010443 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 375286010444 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286010445 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286010446 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 375286010447 dimerization interface [polypeptide binding]; other site 375286010448 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 375286010449 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 375286010450 dimer interface [polypeptide binding]; other site 375286010451 ssDNA binding site [nucleotide binding]; other site 375286010452 tetramer (dimer of dimers) interface [polypeptide binding]; other site 375286010453 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 375286010454 Major Facilitator Superfamily; Region: MFS_1; pfam07690 375286010455 putative substrate translocation pore; other site 375286010456 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 375286010457 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 375286010458 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 375286010459 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 375286010460 Predicted permeases [General function prediction only]; Region: COG0679 375286010461 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 375286010462 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 375286010463 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 375286010464 hypothetical protein; Validated; Region: PRK08238 375286010465 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 375286010466 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 375286010467 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 375286010468 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 375286010469 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 375286010470 TrkA-N domain; Region: TrkA_N; pfam02254 375286010471 TrkA-C domain; Region: TrkA_C; pfam02080 375286010472 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 375286010473 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 375286010474 putative active site [active] 375286010475 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 375286010476 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 375286010477 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 375286010478 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 375286010479 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 375286010480 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 375286010481 OstA-like protein; Region: OstA; pfam03968 375286010482 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 375286010483 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 375286010484 Walker A/P-loop; other site 375286010485 ATP binding site [chemical binding]; other site 375286010486 Q-loop/lid; other site 375286010487 ABC transporter signature motif; other site 375286010488 Walker B; other site 375286010489 D-loop; other site 375286010490 H-loop/switch region; other site 375286010491 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 375286010492 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 375286010493 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 375286010494 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 375286010495 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 375286010496 30S subunit binding site; other site 375286010497 Gram-negative bacterial tonB protein; Region: TonB; cl10048 375286010498 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 375286010499 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 375286010500 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 375286010501 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 375286010502 Type II transport protein GspH; Region: GspH; pfam12019 375286010503 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 375286010504 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 375286010505 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 375286010506 substrate binding site [chemical binding]; other site 375286010507 oxyanion hole (OAH) forming residues; other site 375286010508 trimer interface [polypeptide binding]; other site 375286010509 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 375286010510 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 375286010511 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 375286010512 Zn2+ binding site [ion binding]; other site 375286010513 Mg2+ binding site [ion binding]; other site 375286010514 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 375286010515 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 375286010516 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional; Region: PRK14021 375286010517 ADP binding site [chemical binding]; other site 375286010518 magnesium binding site [ion binding]; other site 375286010519 putative shikimate binding site; other site 375286010520 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 375286010521 active site 375286010522 dimer interface [polypeptide binding]; other site 375286010523 metal binding site [ion binding]; metal-binding site 375286010524 AMIN domain; Region: AMIN; pfam11741 375286010525 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 375286010526 Secretin and TonB N terminus short domain; Region: STN; smart00965 375286010527 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 375286010528 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 375286010529 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 375286010530 Pilus assembly protein, PilP; Region: PilP; pfam04351 375286010531 Pilus assembly protein, PilO; Region: PilO; pfam04350 375286010532 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 375286010533 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 375286010534 Competence protein A; Region: Competence_A; pfam11104 375286010535 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 375286010536 nucleotide binding site [chemical binding]; other site 375286010537 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 375286010538 Transglycosylase; Region: Transgly; pfam00912 375286010539 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 375286010540 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 375286010541 putative iron binding site [ion binding]; other site 375286010542 diaminopimelate decarboxylase; Region: lysA; TIGR01048 375286010543 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 375286010544 active site 375286010545 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 375286010546 substrate binding site [chemical binding]; other site 375286010547 catalytic residues [active] 375286010548 dimer interface [polypeptide binding]; other site 375286010549 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 375286010550 TMAO/DMSO reductase; Reviewed; Region: PRK05363 375286010551 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 375286010552 Moco binding site; other site 375286010553 metal coordination site [ion binding]; other site 375286010554 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 375286010555 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 375286010556 ResB-like family; Region: ResB; pfam05140 375286010557 ResB-like family; Region: ResB; pfam05140 375286010558 Cytochrome c553 [Energy production and conversion]; Region: COG2863 375286010559 Cytochrome c; Region: Cytochrom_C; cl11414 375286010560 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 375286010561 G1 box; other site 375286010562 GTP/Mg2+ binding site [chemical binding]; other site 375286010563 Switch I region; other site 375286010564 G2 box; other site 375286010565 G3 box; other site 375286010566 Switch II region; other site 375286010567 G4 box; other site 375286010568 G5 box; other site 375286010569 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 375286010570 dimer interface [polypeptide binding]; other site 375286010571 allosteric magnesium binding site [ion binding]; other site 375286010572 active site 375286010573 aspartate-rich active site metal binding site; other site 375286010574 Schiff base residues; other site 375286010575 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 375286010576 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 375286010577 dimer interface [polypeptide binding]; other site 375286010578 decamer (pentamer of dimers) interface [polypeptide binding]; other site 375286010579 catalytic triad [active] 375286010580 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 375286010581 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 375286010582 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 375286010583 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 375286010584 DsbD alpha interface [polypeptide binding]; other site 375286010585 catalytic residues [active] 375286010586 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 375286010587 ABC-2 type transporter; Region: ABC2_membrane; cl17235 375286010588 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 375286010589 nodulation ABC transporter NodI; Provisional; Region: PRK13537 375286010590 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 375286010591 Walker A/P-loop; other site 375286010592 ATP binding site [chemical binding]; other site 375286010593 Q-loop/lid; other site 375286010594 ABC transporter signature motif; other site 375286010595 Walker B; other site 375286010596 D-loop; other site 375286010597 H-loop/switch region; other site 375286010598 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 375286010599 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 375286010600 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 375286010601 alphaNTD homodimer interface [polypeptide binding]; other site 375286010602 alphaNTD - beta interaction site [polypeptide binding]; other site 375286010603 alphaNTD - beta' interaction site [polypeptide binding]; other site 375286010604 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 375286010605 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 375286010606 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 375286010607 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 375286010608 RNA binding surface [nucleotide binding]; other site 375286010609 30S ribosomal protein S11; Validated; Region: PRK05309 375286010610 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 375286010611 30S ribosomal protein S13; Region: bact_S13; TIGR03631 375286010612 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 375286010613 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 375286010614 rRNA binding site [nucleotide binding]; other site 375286010615 predicted 30S ribosome binding site; other site 375286010616 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 375286010617 SecY translocase; Region: SecY; pfam00344 375286010618 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 375286010619 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 375286010620 23S rRNA binding site [nucleotide binding]; other site 375286010621 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 375286010622 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 375286010623 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 375286010624 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 375286010625 5S rRNA interface [nucleotide binding]; other site 375286010626 L27 interface [polypeptide binding]; other site 375286010627 23S rRNA interface [nucleotide binding]; other site 375286010628 L5 interface [polypeptide binding]; other site 375286010629 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 375286010630 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 375286010631 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 375286010632 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 375286010633 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 375286010634 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 375286010635 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 375286010636 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 375286010637 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 375286010638 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 375286010639 RNA binding site [nucleotide binding]; other site 375286010640 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 375286010641 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 375286010642 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 375286010643 23S rRNA interface [nucleotide binding]; other site 375286010644 putative translocon interaction site; other site 375286010645 signal recognition particle (SRP54) interaction site; other site 375286010646 L23 interface [polypeptide binding]; other site 375286010647 trigger factor interaction site; other site 375286010648 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 375286010649 23S rRNA interface [nucleotide binding]; other site 375286010650 5S rRNA interface [nucleotide binding]; other site 375286010651 putative antibiotic binding site [chemical binding]; other site 375286010652 L25 interface [polypeptide binding]; other site 375286010653 L27 interface [polypeptide binding]; other site 375286010654 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 375286010655 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 375286010656 G-X-X-G motif; other site 375286010657 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 375286010658 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 375286010659 putative translocon binding site; other site 375286010660 protein-rRNA interface [nucleotide binding]; other site 375286010661 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 375286010662 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 375286010663 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 375286010664 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 375286010665 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 375286010666 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 375286010667 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 375286010668 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 375286010669 elongation factor Tu; Reviewed; Region: PRK00049 375286010670 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 375286010671 G1 box; other site 375286010672 GEF interaction site [polypeptide binding]; other site 375286010673 GTP/Mg2+ binding site [chemical binding]; other site 375286010674 Switch I region; other site 375286010675 G2 box; other site 375286010676 G3 box; other site 375286010677 Switch II region; other site 375286010678 G4 box; other site 375286010679 G5 box; other site 375286010680 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 375286010681 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 375286010682 Antibiotic Binding Site [chemical binding]; other site 375286010683 elongation factor G; Reviewed; Region: PRK00007 375286010684 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 375286010685 G1 box; other site 375286010686 putative GEF interaction site [polypeptide binding]; other site 375286010687 GTP/Mg2+ binding site [chemical binding]; other site 375286010688 Switch I region; other site 375286010689 G2 box; other site 375286010690 G3 box; other site 375286010691 Switch II region; other site 375286010692 G4 box; other site 375286010693 G5 box; other site 375286010694 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 375286010695 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 375286010696 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 375286010697 30S ribosomal protein S7; Validated; Region: PRK05302 375286010698 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 375286010699 S17 interaction site [polypeptide binding]; other site 375286010700 S8 interaction site; other site 375286010701 16S rRNA interaction site [nucleotide binding]; other site 375286010702 streptomycin interaction site [chemical binding]; other site 375286010703 23S rRNA interaction site [nucleotide binding]; other site 375286010704 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 375286010705 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 375286010706 Haem utilisation ChuX/HutX; Region: ChuX_HutX; pfam06228 375286010707 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 375286010708 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 375286010709 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 375286010710 N-terminal plug; other site 375286010711 ligand-binding site [chemical binding]; other site 375286010712 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 375286010713 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 375286010714 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 375286010715 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 375286010716 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 375286010717 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 375286010718 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 375286010719 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 375286010720 DNA binding site [nucleotide binding] 375286010721 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 375286010722 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 375286010723 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 375286010724 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 375286010725 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 375286010726 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 375286010727 RPB3 interaction site [polypeptide binding]; other site 375286010728 RPB1 interaction site [polypeptide binding]; other site 375286010729 RPB11 interaction site [polypeptide binding]; other site 375286010730 RPB10 interaction site [polypeptide binding]; other site 375286010731 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 375286010732 core dimer interface [polypeptide binding]; other site 375286010733 peripheral dimer interface [polypeptide binding]; other site 375286010734 L10 interface [polypeptide binding]; other site 375286010735 L11 interface [polypeptide binding]; other site 375286010736 putative EF-Tu interaction site [polypeptide binding]; other site 375286010737 putative EF-G interaction site [polypeptide binding]; other site 375286010738 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 375286010739 23S rRNA interface [nucleotide binding]; other site 375286010740 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 375286010741 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 375286010742 mRNA/rRNA interface [nucleotide binding]; other site 375286010743 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 375286010744 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 375286010745 23S rRNA interface [nucleotide binding]; other site 375286010746 L7/L12 interface [polypeptide binding]; other site 375286010747 putative thiostrepton binding site; other site 375286010748 L25 interface [polypeptide binding]; other site 375286010749 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 375286010750 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 375286010751 putative homodimer interface [polypeptide binding]; other site 375286010752 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 375286010753 heterodimer interface [polypeptide binding]; other site 375286010754 homodimer interface [polypeptide binding]; other site 375286010755 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 375286010756 elongation factor Tu; Reviewed; Region: PRK00049 375286010757 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 375286010758 G1 box; other site 375286010759 GEF interaction site [polypeptide binding]; other site 375286010760 GTP/Mg2+ binding site [chemical binding]; other site 375286010761 Switch I region; other site 375286010762 G2 box; other site 375286010763 G3 box; other site 375286010764 Switch II region; other site 375286010765 G4 box; other site 375286010766 G5 box; other site 375286010767 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 375286010768 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 375286010769 Antibiotic Binding Site [chemical binding]; other site 375286010770 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 375286010771 Peptidase C26; Region: Peptidase_C26; pfam07722 375286010772 catalytic triad [active] 375286010773 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 375286010774 ArsC family; Region: ArsC; pfam03960 375286010775 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 375286010776 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286010777 active site 375286010778 phosphorylation site [posttranslational modification] 375286010779 intermolecular recognition site; other site 375286010780 dimerization interface [polypeptide binding]; other site 375286010781 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 375286010782 binding surface 375286010783 TPR motif; other site 375286010784 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286010785 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286010786 metal binding site [ion binding]; metal-binding site 375286010787 active site 375286010788 I-site; other site 375286010789 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 375286010790 Major Facilitator Superfamily; Region: MFS_1; pfam07690 375286010791 putative substrate translocation pore; other site 375286010792 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 375286010793 Domain of unknown function DUF21; Region: DUF21; pfam01595 375286010794 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 375286010795 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 375286010796 Transporter associated domain; Region: CorC_HlyC; smart01091 375286010797 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 375286010798 Uncharacterized conserved protein [Function unknown]; Region: COG1565 375286010799 short chain dehydrogenase; Provisional; Region: PRK09134 375286010800 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375286010801 NAD(P) binding site [chemical binding]; other site 375286010802 active site 375286010803 Dihydroneopterin aldolase; Region: FolB; smart00905 375286010804 active site 375286010805 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 375286010806 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 375286010807 Ligand Binding Site [chemical binding]; other site 375286010808 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 375286010809 dimer interface [polypeptide binding]; other site 375286010810 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 375286010811 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 375286010812 Substrate binding site; other site 375286010813 Mg++ binding site; other site 375286010814 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 375286010815 active site 375286010816 substrate binding site [chemical binding]; other site 375286010817 CoA binding site [chemical binding]; other site 375286010818 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 375286010819 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 375286010820 putative DNA binding site [nucleotide binding]; other site 375286010821 putative Zn2+ binding site [ion binding]; other site 375286010822 AsnC family; Region: AsnC_trans_reg; pfam01037 375286010823 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 375286010824 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 375286010825 glutaminase active site [active] 375286010826 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 375286010827 dimer interface [polypeptide binding]; other site 375286010828 active site 375286010829 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 375286010830 dimer interface [polypeptide binding]; other site 375286010831 active site 375286010832 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 375286010833 Protein of unknown function (DUF524); Region: DUF524; pfam04411 375286010834 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 375286010835 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 375286010836 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 375286010837 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 375286010838 Domain of unknown function (DUF4365); Region: DUF4365; pfam14280 375286010839 Tetratricopeptide repeat; Region: TPR_12; pfam13424 375286010840 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 375286010841 binding surface 375286010842 TPR motif; other site 375286010843 TPR repeat; Region: TPR_11; pfam13414 375286010844 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 375286010845 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 375286010846 binding surface 375286010847 TPR motif; other site 375286010848 Integrase core domain; Region: rve; pfam00665 375286010849 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 375286010850 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 375286010851 ParB-like nuclease domain; Region: ParBc; cl02129 375286010852 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 375286010853 RepB plasmid partitioning protein; Region: RepB; pfam07506 375286010854 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 375286010855 ParB-like nuclease domain; Region: ParB; smart00470 375286010856 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 375286010857 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 375286010858 catalytic residues [active] 375286010859 catalytic nucleophile [active] 375286010860 Recombinase; Region: Recombinase; pfam07508 375286010861 WYL domain; Region: WYL; pfam13280 375286010862 hypothetical protein; Provisional; Region: PRK06153 375286010863 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 375286010864 ATP binding site [chemical binding]; other site 375286010865 substrate interface [chemical binding]; other site 375286010866 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 375286010867 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 375286010868 substrate binding pocket [chemical binding]; other site 375286010869 membrane-bound complex binding site; other site 375286010870 hinge residues; other site 375286010871 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 375286010872 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 375286010873 active site 375286010874 non-prolyl cis peptide bond; other site 375286010875 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 375286010876 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 375286010877 DEAD-like helicases superfamily; Region: DEXDc; smart00487 375286010878 ATP binding site [chemical binding]; other site 375286010879 Mg++ binding site [ion binding]; other site 375286010880 motif III; other site 375286010881 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 375286010882 nucleotide binding region [chemical binding]; other site 375286010883 ATP-binding site [chemical binding]; other site 375286010884 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 375286010885 putative RNA binding site [nucleotide binding]; other site 375286010886 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 375286010887 putative RNA binding site [nucleotide binding]; other site 375286010888 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 375286010889 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 375286010890 putative substrate translocation pore; other site 375286010891 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 375286010892 active site 375286010893 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 375286010894 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 375286010895 catalytic core [active] 375286010896 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 375286010897 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 375286010898 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 375286010899 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 375286010900 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 375286010901 Q-loop/lid; other site 375286010902 ABC transporter signature motif; other site 375286010903 Walker B; other site 375286010904 D-loop; other site 375286010905 H-loop/switch region; other site 375286010906 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 375286010907 FtsX-like permease family; Region: FtsX; pfam02687 375286010908 macrolide transporter subunit MacA; Provisional; Region: PRK11578 375286010909 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 375286010910 HlyD family secretion protein; Region: HlyD_3; pfam13437 375286010911 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 375286010912 Secretin and TonB N terminus short domain; Region: STN; smart00965 375286010913 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 375286010914 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 375286010915 N-terminal plug; other site 375286010916 ligand-binding site [chemical binding]; other site 375286010917 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 375286010918 FecR protein; Region: FecR; pfam04773 375286010919 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 375286010920 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286010921 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 375286010922 DNA binding residues [nucleotide binding] 375286010923 propionate catabolism operon regulatory protein PrpR; Provisional; Region: PRK15424 375286010924 Propionate catabolism activator; Region: PrpR_N; pfam06506 375286010925 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 375286010926 Walker A motif; other site 375286010927 ATP binding site [chemical binding]; other site 375286010928 Walker B motif; other site 375286010929 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 375286010930 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 375286010931 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 375286010932 tetramer interface [polypeptide binding]; other site 375286010933 active site 375286010934 Mg2+/Mn2+ binding site [ion binding]; other site 375286010935 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 375286010936 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 375286010937 dimer interface [polypeptide binding]; other site 375286010938 active site 375286010939 citrylCoA binding site [chemical binding]; other site 375286010940 oxalacetate/citrate binding site [chemical binding]; other site 375286010941 coenzyme A binding site [chemical binding]; other site 375286010942 catalytic triad [active] 375286010943 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 375286010944 2-methylcitrate dehydratase; Region: prpD; TIGR02330 375286010945 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 375286010946 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 375286010947 acyl-activating enzyme (AAE) consensus motif; other site 375286010948 AMP binding site [chemical binding]; other site 375286010949 active site 375286010950 CoA binding site [chemical binding]; other site 375286010951 Secretin and TonB N terminus short domain; Region: STN; smart00965 375286010952 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 375286010953 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 375286010954 N-terminal plug; other site 375286010955 ligand-binding site [chemical binding]; other site 375286010956 fec operon regulator FecR; Reviewed; Region: PRK09774 375286010957 FecR protein; Region: FecR; pfam04773 375286010958 RNA polymerase sigma factor; Provisional; Region: PRK12528 375286010959 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286010960 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 375286010961 DNA binding residues [nucleotide binding] 375286010962 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 375286010963 Secretin and TonB N terminus short domain; Region: STN; smart00965 375286010964 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 375286010965 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 375286010966 N-terminal plug; other site 375286010967 ligand-binding site [chemical binding]; other site 375286010968 fec operon regulator FecR; Reviewed; Region: PRK09774 375286010969 FecR protein; Region: FecR; pfam04773 375286010970 RNA polymerase sigma factor; Provisional; Region: PRK12528 375286010971 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286010972 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 375286010973 DNA binding residues [nucleotide binding] 375286010974 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 375286010975 isocitrate dehydrogenase; Validated; Region: PRK06451 375286010976 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 375286010977 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 375286010978 Pirin-related protein [General function prediction only]; Region: COG1741 375286010979 Pirin; Region: Pirin; pfam02678 375286010980 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 375286010981 Uncharacterized conserved protein [Function unknown]; Region: COG3791 375286010982 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 375286010983 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 375286010984 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286010985 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 375286010986 DNA binding residues [nucleotide binding] 375286010987 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 375286010988 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 375286010989 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 375286010990 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375286010991 HPP family; Region: HPP; pfam04982 375286010992 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 375286010993 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 375286010994 putative substrate translocation pore; other site 375286010995 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 375286010996 Domain of unknown function DUF20; Region: UPF0118; pfam01594 375286010997 rhodanese superfamily protein; Provisional; Region: PRK05320 375286010998 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 375286010999 active site residue [active] 375286011000 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 375286011001 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 375286011002 probable active site [active] 375286011003 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 375286011004 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 375286011005 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 375286011006 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 375286011007 dimer interface [polypeptide binding]; other site 375286011008 phosphorylation site [posttranslational modification] 375286011009 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286011010 ATP binding site [chemical binding]; other site 375286011011 Mg2+ binding site [ion binding]; other site 375286011012 G-X-G motif; other site 375286011013 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 375286011014 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 375286011015 Ligand binding site; other site 375286011016 DXD motif; other site 375286011017 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 375286011018 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 375286011019 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 375286011020 Predicted membrane protein [Function unknown]; Region: COG2311 375286011021 Protein of unknown function (DUF418); Region: DUF418; cl12135 375286011022 Protein of unknown function (DUF418); Region: DUF418; pfam04235 375286011023 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 375286011024 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 375286011025 Walker A/P-loop; other site 375286011026 ATP binding site [chemical binding]; other site 375286011027 Q-loop/lid; other site 375286011028 ABC transporter signature motif; other site 375286011029 Walker B; other site 375286011030 D-loop; other site 375286011031 H-loop/switch region; other site 375286011032 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 375286011033 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 375286011034 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 375286011035 Walker A/P-loop; other site 375286011036 ATP binding site [chemical binding]; other site 375286011037 Q-loop/lid; other site 375286011038 ABC transporter signature motif; other site 375286011039 Walker B; other site 375286011040 D-loop; other site 375286011041 H-loop/switch region; other site 375286011042 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 375286011043 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 375286011044 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286011045 dimer interface [polypeptide binding]; other site 375286011046 conserved gate region; other site 375286011047 putative PBP binding loops; other site 375286011048 ABC-ATPase subunit interface; other site 375286011049 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 375286011050 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286011051 dimer interface [polypeptide binding]; other site 375286011052 conserved gate region; other site 375286011053 putative PBP binding loops; other site 375286011054 ABC-ATPase subunit interface; other site 375286011055 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 375286011056 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 375286011057 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 375286011058 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 375286011059 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 375286011060 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 375286011061 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 375286011062 metal-binding site [ion binding] 375286011063 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 375286011064 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 375286011065 metal-binding site [ion binding] 375286011066 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 375286011067 Soluble P-type ATPase [General function prediction only]; Region: COG4087 375286011068 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 375286011069 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 375286011070 DNA binding residues [nucleotide binding] 375286011071 dimer interface [polypeptide binding]; other site 375286011072 copper binding site [ion binding]; other site 375286011073 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 375286011074 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 375286011075 metal-binding site [ion binding] 375286011076 Predicted small integral membrane protein (DUF2165); Region: DUF2165; pfam09933 375286011077 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375286011078 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375286011079 metal binding site [ion binding]; metal-binding site 375286011080 active site 375286011081 I-site; other site 375286011082 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 375286011083 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 375286011084 N-terminal plug; other site 375286011085 ligand-binding site [chemical binding]; other site 375286011086 Predicted permeases [General function prediction only]; Region: RarD; COG2962 375286011087 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 375286011088 potassium uptake protein; Region: kup; TIGR00794 375286011089 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 375286011090 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 375286011091 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 375286011092 ABC transporter; Region: ABC_tran_2; pfam12848 375286011093 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 375286011094 NMT1-like family; Region: NMT1_2; pfam13379 375286011095 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 375286011096 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 375286011097 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286011098 dimer interface [polypeptide binding]; other site 375286011099 conserved gate region; other site 375286011100 putative PBP binding loops; other site 375286011101 ABC-ATPase subunit interface; other site 375286011102 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 375286011103 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 375286011104 Walker A/P-loop; other site 375286011105 ATP binding site [chemical binding]; other site 375286011106 Q-loop/lid; other site 375286011107 ABC transporter signature motif; other site 375286011108 Walker B; other site 375286011109 D-loop; other site 375286011110 H-loop/switch region; other site 375286011111 DsrE/DsrF-like family; Region: DrsE; cl00672 375286011112 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 375286011113 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 375286011114 Moco binding site; other site 375286011115 metal coordination site [ion binding]; other site 375286011116 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 375286011117 RNA polymerase sigma factor; Provisional; Region: PRK12536 375286011118 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375286011119 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 375286011120 DNA binding residues [nucleotide binding] 375286011121 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 375286011122 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 375286011123 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 375286011124 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 375286011125 dimerization interface [polypeptide binding]; other site 375286011126 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375286011127 dimer interface [polypeptide binding]; other site 375286011128 putative CheW interface [polypeptide binding]; other site 375286011129 Uncharacterized conserved protein [Function unknown]; Region: COG1739 375286011130 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 375286011131 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 375286011132 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 375286011133 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 375286011134 active site 375286011135 catalytic tetrad [active] 375286011136 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 375286011137 catalytic residues [active] 375286011138 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 375286011139 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 375286011140 Predicted membrane protein [Function unknown]; Region: COG2119 375286011141 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 375286011142 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 375286011143 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 375286011144 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 375286011145 FMN binding site [chemical binding]; other site 375286011146 substrate binding site [chemical binding]; other site 375286011147 putative catalytic residue [active] 375286011148 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 375286011149 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 375286011150 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 375286011151 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 375286011152 Walker A/P-loop; other site 375286011153 ATP binding site [chemical binding]; other site 375286011154 Q-loop/lid; other site 375286011155 ABC transporter signature motif; other site 375286011156 Walker B; other site 375286011157 D-loop; other site 375286011158 H-loop/switch region; other site 375286011159 cyanophycin synthetase; Provisional; Region: PRK14016 375286011160 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 375286011161 cyanophycin synthetase; Provisional; Region: PRK14016 375286011162 ATP-grasp domain; Region: ATP-grasp_4; cl17255 375286011163 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 375286011164 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 375286011165 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 375286011166 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 375286011167 FOG: CBS domain [General function prediction only]; Region: COG0517 375286011168 Isochorismatase family; Region: Isochorismatase; pfam00857 375286011169 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 375286011170 catalytic triad [active] 375286011171 conserved cis-peptide bond; other site 375286011172 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375286011173 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 375286011174 TM-ABC transporter signature motif; other site 375286011175 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375286011176 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 375286011177 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 375286011178 TM-ABC transporter signature motif; other site 375286011179 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 375286011180 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 375286011181 Walker A/P-loop; other site 375286011182 ATP binding site [chemical binding]; other site 375286011183 Q-loop/lid; other site 375286011184 ABC transporter signature motif; other site 375286011185 Walker B; other site 375286011186 D-loop; other site 375286011187 H-loop/switch region; other site 375286011188 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 375286011189 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 375286011190 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 375286011191 putative ligand binding site [chemical binding]; other site 375286011192 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 375286011193 trimer interface [polypeptide binding]; other site 375286011194 eyelet of channel; other site 375286011195 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 375286011196 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 375286011197 active site 375286011198 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 375286011199 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 375286011200 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 375286011201 putative substrate binding site [chemical binding]; other site 375286011202 nucleotide binding site [chemical binding]; other site 375286011203 nucleotide binding site [chemical binding]; other site 375286011204 homodimer interface [polypeptide binding]; other site 375286011205 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 375286011206 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286011207 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 375286011208 substrate binding pocket [chemical binding]; other site 375286011209 dimerization interface [polypeptide binding]; other site 375286011210 Cytochrome c; Region: Cytochrom_C; cl11414 375286011211 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 375286011212 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 375286011213 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 375286011214 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 375286011215 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 375286011216 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 375286011217 Uncharacterized conserved protein [Function unknown]; Region: COG1434 375286011218 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 375286011219 putative active site [active] 375286011220 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 375286011221 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 375286011222 TAP-like protein; Region: Abhydrolase_4; pfam08386 375286011223 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 375286011224 Mechanosensitive ion channel; Region: MS_channel; pfam00924 375286011225 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 375286011226 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 375286011227 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 375286011228 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 375286011229 N-terminal plug; other site 375286011230 ligand-binding site [chemical binding]; other site 375286011231 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 375286011232 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 375286011233 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 375286011234 dimerization interface [polypeptide binding]; other site 375286011235 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 375286011236 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375286011237 dimer interface [polypeptide binding]; other site 375286011238 putative CheW interface [polypeptide binding]; other site 375286011239 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 375286011240 active site 375286011241 DNA polymerase IV; Validated; Region: PRK02406 375286011242 DNA binding site [nucleotide binding] 375286011243 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 375286011244 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 375286011245 SlyX; Region: SlyX; pfam04102 375286011246 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 375286011247 Part of AAA domain; Region: AAA_19; pfam13245 375286011248 Family description; Region: UvrD_C_2; pfam13538 375286011249 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 375286011250 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 375286011251 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 375286011252 TrkA-N domain; Region: TrkA_N; pfam02254 375286011253 TrkA-C domain; Region: TrkA_C; pfam02080 375286011254 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 375286011255 putative hydrophobic ligand binding site [chemical binding]; other site 375286011256 BON domain; Region: BON; pfam04972 375286011257 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 375286011258 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 375286011259 L-ectoine synthase; Reviewed; Region: ectC; PRK13290 375286011260 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 375286011261 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 375286011262 inhibitor-cofactor binding pocket; inhibition site 375286011263 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375286011264 catalytic residue [active] 375286011265 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 375286011266 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 375286011267 Coenzyme A binding pocket [chemical binding]; other site 375286011268 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 375286011269 MarR family; Region: MarR; pfam01047 375286011270 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 375286011271 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 375286011272 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 375286011273 primosome assembly protein PriA; Validated; Region: PRK05580 375286011274 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 375286011275 ATP binding site [chemical binding]; other site 375286011276 putative Mg++ binding site [ion binding]; other site 375286011277 helicase superfamily c-terminal domain; Region: HELICc; smart00490 375286011278 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 375286011279 substrate binding site [chemical binding]; other site 375286011280 active site 375286011281 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 375286011282 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 375286011283 Zn2+ binding site [ion binding]; other site 375286011284 Mg2+ binding site [ion binding]; other site 375286011285 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 375286011286 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 375286011287 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 375286011288 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 375286011289 putative dimer interface [polypeptide binding]; other site 375286011290 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 375286011291 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 375286011292 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 375286011293 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 375286011294 Transthyretin-like family; Region: DUF290; pfam01060 375286011295 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 375286011296 ApbE family; Region: ApbE; pfam02424 375286011297 Flavodoxin; Region: Flavodoxin_1; pfam00258 375286011298 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 375286011299 FAD binding pocket [chemical binding]; other site 375286011300 FAD binding motif [chemical binding]; other site 375286011301 catalytic residues [active] 375286011302 NAD binding pocket [chemical binding]; other site 375286011303 phosphate binding motif [ion binding]; other site 375286011304 beta-alpha-beta structure motif; other site 375286011305 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 375286011306 catecholate siderophore receptor Fiu; Provisional; Region: PRK09840 375286011307 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 375286011308 N-terminal plug; other site 375286011309 ligand-binding site [chemical binding]; other site 375286011310 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 375286011311 catecholate siderophore receptor Fiu; Provisional; Region: PRK09840 375286011312 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 375286011313 N-terminal plug; other site 375286011314 ligand-binding site [chemical binding]; other site 375286011315 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 375286011316 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 375286011317 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 375286011318 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 375286011319 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 375286011320 N-terminal plug; other site 375286011321 ligand-binding site [chemical binding]; other site 375286011322 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 375286011323 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 375286011324 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 375286011325 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 375286011326 gamma subunit interface [polypeptide binding]; other site 375286011327 epsilon subunit interface [polypeptide binding]; other site 375286011328 LBP interface [polypeptide binding]; other site 375286011329 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 375286011330 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 375286011331 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 375286011332 alpha subunit interaction interface [polypeptide binding]; other site 375286011333 Walker A motif; other site 375286011334 ATP binding site [chemical binding]; other site 375286011335 Walker B motif; other site 375286011336 inhibitor binding site; inhibition site 375286011337 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 375286011338 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 375286011339 core domain interface [polypeptide binding]; other site 375286011340 delta subunit interface [polypeptide binding]; other site 375286011341 epsilon subunit interface [polypeptide binding]; other site 375286011342 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 375286011343 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 375286011344 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 375286011345 beta subunit interaction interface [polypeptide binding]; other site 375286011346 Walker A motif; other site 375286011347 ATP binding site [chemical binding]; other site 375286011348 Walker B motif; other site 375286011349 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 375286011350 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 375286011351 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 375286011352 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 375286011353 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 375286011354 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 375286011355 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 375286011356 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 375286011357 ATP synthase I chain; Region: ATP_synt_I; cl09170 375286011358 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 375286011359 ParB-like nuclease domain; Region: ParB; smart00470 375286011360 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 375286011361 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 375286011362 P-loop; other site 375286011363 Magnesium ion binding site [ion binding]; other site 375286011364 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 375286011365 Magnesium ion binding site [ion binding]; other site 375286011366 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 375286011367 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 375286011368 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 375286011369 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 375286011370 S-adenosylmethionine binding site [chemical binding]; other site 375286011371 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 375286011372 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 375286011373 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 375286011374 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 375286011375 hypothetical protein; Provisional; Region: PRK10621 375286011376 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 375286011377 choline dehydrogenase; Validated; Region: PRK02106 375286011378 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 375286011379 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 375286011380 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 375286011381 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 375286011382 tetrameric interface [polypeptide binding]; other site 375286011383 NAD binding site [chemical binding]; other site 375286011384 catalytic residues [active] 375286011385 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 375286011386 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 375286011387 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 375286011388 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 375286011389 DNA binding residues [nucleotide binding] 375286011390 putative dimer interface [polypeptide binding]; other site 375286011391 putative metal binding residues [ion binding]; other site 375286011392 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 375286011393 S-adenosylmethionine binding site [chemical binding]; other site 375286011394 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 375286011395 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 375286011396 catalytic triad [active] 375286011397 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 375286011398 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286011399 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 375286011400 substrate binding pocket [chemical binding]; other site 375286011401 dimerization interface [polypeptide binding]; other site 375286011402 PBP superfamily domain; Region: PBP_like_2; pfam12849 375286011403 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 375286011404 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 375286011405 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 375286011406 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 375286011407 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 375286011408 catalytic loop [active] 375286011409 iron binding site [ion binding]; other site 375286011410 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 375286011411 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 375286011412 [4Fe-4S] binding site [ion binding]; other site 375286011413 molybdopterin cofactor binding site; other site 375286011414 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 375286011415 molybdopterin cofactor binding site; other site 375286011416 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 375286011417 putative dimer interface [polypeptide binding]; other site 375286011418 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 375286011419 SLBB domain; Region: SLBB; pfam10531 375286011420 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 375286011421 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 375286011422 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 375286011423 putative dimer interface [polypeptide binding]; other site 375286011424 [2Fe-2S] cluster binding site [ion binding]; other site 375286011425 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 375286011426 PBP superfamily domain; Region: PBP_like; pfam12727 375286011427 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375286011428 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 375286011429 Walker A/P-loop; other site 375286011430 ATP binding site [chemical binding]; other site 375286011431 Q-loop/lid; other site 375286011432 ABC transporter signature motif; other site 375286011433 Walker B; other site 375286011434 D-loop; other site 375286011435 H-loop/switch region; other site 375286011436 TOBE domain; Region: TOBE; pfam03459 375286011437 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 375286011438 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 375286011439 dimer interface [polypeptide binding]; other site 375286011440 conserved gate region; other site 375286011441 putative PBP binding loops; other site 375286011442 ABC-ATPase subunit interface; other site 375286011443 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 375286011444 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 375286011445 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 375286011446 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 375286011447 molybdenum-pterin binding domain; Region: Mop; TIGR00638 375286011448 molybdenum-pterin binding domain; Region: Mop; TIGR00638 375286011449 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375286011450 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375286011451 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 375286011452 dimerization interface [polypeptide binding]; other site 375286011453 formate dehydrogenase; Provisional; Region: PRK07574 375286011454 NAD-dependent Formate Dehydrogenase (FDH); Region: FDH; cd05302 375286011455 dimerization interface [polypeptide binding]; other site 375286011456 ligand binding site [chemical binding]; other site 375286011457 NAD binding site [chemical binding]; other site 375286011458 catalytic site [active] 375286011459 HPP family; Region: HPP; pfam04982 375286011460 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 375286011461 Transcriptional regulator [Transcription]; Region: IclR; COG1414 375286011462 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 375286011463 Bacterial transcriptional regulator; Region: IclR; pfam01614 375286011464 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 375286011465 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 375286011466 putative active site [active] 375286011467 putative catalytic site [active] 375286011468 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 375286011469 active site 375286011470 homotetramer interface [polypeptide binding]; other site 375286011471 homodimer interface [polypeptide binding]; other site 375286011472 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 375286011473 Major Facilitator Superfamily; Region: MFS_1; pfam07690 375286011474 putative substrate translocation pore; other site 375286011475 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 375286011476 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 375286011477 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 375286011478 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 375286011479 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 375286011480 N-terminal plug; other site 375286011481 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 375286011482 ligand-binding site [chemical binding]; other site 375286011483 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 375286011484 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 375286011485 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 375286011486 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375286011487 active site 375286011488 phosphorylation site [posttranslational modification] 375286011489 intermolecular recognition site; other site 375286011490 dimerization interface [polypeptide binding]; other site 375286011491 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 375286011492 Walker A motif; other site 375286011493 ATP binding site [chemical binding]; other site 375286011494 Walker B motif; other site 375286011495 arginine finger; other site 375286011496 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 375286011497 HAMP domain; Region: HAMP; pfam00672 375286011498 dimerization interface [polypeptide binding]; other site 375286011499 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 375286011500 dimer interface [polypeptide binding]; other site 375286011501 phosphorylation site [posttranslational modification] 375286011502 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 375286011503 ATP binding site [chemical binding]; other site 375286011504 Mg2+ binding site [ion binding]; other site 375286011505 G-X-G motif; other site 375286011506 xanthine permease; Region: pbuX; TIGR03173 375286011507 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 375286011508 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 375286011509 putative C-terminal domain interface [polypeptide binding]; other site 375286011510 putative GSH binding site (G-site) [chemical binding]; other site 375286011511 putative dimer interface [polypeptide binding]; other site 375286011512 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 375286011513 putative N-terminal domain interface [polypeptide binding]; other site 375286011514 putative dimer interface [polypeptide binding]; other site 375286011515 putative substrate binding pocket (H-site) [chemical binding]; other site 375286011516 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 375286011517 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 375286011518 [2Fe-2S] cluster binding site [ion binding]; other site 375286011519 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 375286011520 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 375286011521 FMN-binding pocket [chemical binding]; other site 375286011522 flavin binding motif; other site 375286011523 phosphate binding motif [ion binding]; other site 375286011524 beta-alpha-beta structure motif; other site 375286011525 NAD binding pocket [chemical binding]; other site 375286011526 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 375286011527 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 375286011528 catalytic loop [active] 375286011529 iron binding site [ion binding]; other site 375286011530 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 375286011531 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 375286011532 hydrophobic ligand binding site; other site 375286011533 Transcriptional regulators [Transcription]; Region: FadR; COG2186 375286011534 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375286011535 DNA-binding site [nucleotide binding]; DNA binding site 375286011536 FCD domain; Region: FCD; pfam07729 375286011537 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 375286011538 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 375286011539 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 375286011540 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 375286011541 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 375286011542 active site 375286011543 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 375286011544 catalytic triad [active] 375286011545 dimer interface [polypeptide binding]; other site 375286011546 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 375286011547 active site 375286011548 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 375286011549 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 375286011550 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 375286011551 dimerization interface [polypeptide binding]; other site 375286011552 NAD binding site [chemical binding]; other site 375286011553 ligand binding site [chemical binding]; other site 375286011554 catalytic site [active] 375286011555 CheW-like domain; Region: CheW; pfam01584 375286011556 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 375286011557 active site 375286011558 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 375286011559 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 375286011560 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 375286011561 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 375286011562 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 375286011563 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 375286011564 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 375286011565 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 375286011566 trmE is a tRNA modification GTPase; Region: trmE; cd04164 375286011567 G1 box; other site 375286011568 GTP/Mg2+ binding site [chemical binding]; other site 375286011569 Switch I region; other site 375286011570 G2 box; other site 375286011571 Switch II region; other site 375286011572 G3 box; other site 375286011573 G4 box; other site 375286011574 G5 box; other site 375286011575 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 375286011576 membrane protein insertase; Provisional; Region: PRK01318 375286011577 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 375286011578 Haemolytic domain; Region: Haemolytic; pfam01809 375286011579 Ribonuclease P; Region: Ribonuclease_P; cl00457 375286011580 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399