-- dump date 20111121_015544 -- class Genbank::misc_feature -- table misc_feature_note -- id note 243277000001 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 243277000002 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 243277000003 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 243277000004 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 243277000005 G1 box; other site 243277000006 GTP/Mg2+ binding site [chemical binding]; other site 243277000007 Switch I region; other site 243277000008 G2 box; other site 243277000009 Switch II region; other site 243277000010 G3 box; other site 243277000011 G4 box; other site 243277000012 G5 box; other site 243277000013 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 243277000014 membrane protein insertase; Provisional; Region: PRK01318 243277000015 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 243277000016 Domain of unknown function DUF37; Region: DUF37; cl00506 243277000017 Ribonuclease P; Region: Ribonuclease_P; cl00457 243277000018 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 243277000019 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 243277000020 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 243277000021 Walker A/P-loop; other site 243277000022 ATP binding site [chemical binding]; other site 243277000023 Q-loop/lid; other site 243277000024 ABC transporter signature motif; other site 243277000025 Walker B; other site 243277000026 D-loop; other site 243277000027 H-loop/switch region; other site 243277000028 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277000029 dimer interface [polypeptide binding]; other site 243277000030 conserved gate region; other site 243277000031 putative PBP binding loops; other site 243277000032 ABC-ATPase subunit interface; other site 243277000033 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 243277000034 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 243277000035 substrate binding pocket [chemical binding]; other site 243277000036 membrane-bound complex binding site; other site 243277000037 hinge residues; other site 243277000038 hypothetical protein; Validated; Region: PRK06672 243277000039 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 243277000040 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 243277000041 Walker A motif; other site 243277000042 ATP binding site [chemical binding]; other site 243277000043 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277000044 Walker B motif; other site 243277000045 arginine finger; other site 243277000046 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 243277000047 DnaA box-binding interface [nucleotide binding]; other site 243277000048 DNA polymerase III subunit beta; Validated; Region: PRK05643 243277000049 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 243277000050 putative DNA binding surface [nucleotide binding]; other site 243277000051 dimer interface [polypeptide binding]; other site 243277000052 beta-clamp/clamp loader binding surface; other site 243277000053 beta-clamp/translesion DNA polymerase binding surface; other site 243277000054 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 243277000055 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277000056 Walker A/P-loop; other site 243277000057 ATP binding site [chemical binding]; other site 243277000058 Q-loop/lid; other site 243277000059 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277000060 ABC transporter signature motif; other site 243277000061 Walker B; other site 243277000062 D-loop; other site 243277000063 H-loop/switch region; other site 243277000064 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 243277000065 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277000066 Mg2+ binding site [ion binding]; other site 243277000067 G-X-G motif; other site 243277000068 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 243277000069 anchoring element; other site 243277000070 dimer interface [polypeptide binding]; other site 243277000071 ATP binding site [chemical binding]; other site 243277000072 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 243277000073 active site 243277000074 putative metal-binding site [ion binding]; other site 243277000075 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 243277000076 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 243277000077 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 243277000078 putative dimer interface [polypeptide binding]; other site 243277000079 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 243277000080 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 243277000081 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243277000082 homodimer interface [polypeptide binding]; other site 243277000083 catalytic residue [active] 243277000084 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 243277000085 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 243277000086 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 243277000087 dimer interface [polypeptide binding]; other site 243277000088 motif 1; other site 243277000089 active site 243277000090 motif 2; other site 243277000091 motif 3; other site 243277000092 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 243277000093 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 243277000094 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 243277000095 CPxP motif; other site 243277000096 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 243277000097 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 243277000098 NADP binding site [chemical binding]; other site 243277000099 dimer interface [polypeptide binding]; other site 243277000100 threonine dehydratase; Reviewed; Region: PRK09224 243277000101 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 243277000102 tetramer interface [polypeptide binding]; other site 243277000103 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243277000104 catalytic residue [active] 243277000105 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 243277000106 putative Ile/Val binding site [chemical binding]; other site 243277000107 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 243277000108 putative Ile/Val binding site [chemical binding]; other site 243277000109 Dehydratase family; Region: ILVD_EDD; cl00340 243277000110 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 243277000111 homodimer interface [polypeptide binding]; other site 243277000112 substrate-cofactor binding pocket; other site 243277000113 Aminotransferase class IV; Region: Aminotran_4; pfam01063 243277000114 catalytic residue [active] 243277000115 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 243277000116 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 243277000117 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 243277000118 PYR/PP interface [polypeptide binding]; other site 243277000119 dimer interface [polypeptide binding]; other site 243277000120 TPP binding site [chemical binding]; other site 243277000121 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 243277000122 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 243277000123 TPP-binding site [chemical binding]; other site 243277000124 dimer interface [polypeptide binding]; other site 243277000125 Mg chelatase-related protein; Region: TIGR00368 243277000126 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 243277000127 Walker A motif; other site 243277000128 ATP binding site [chemical binding]; other site 243277000129 Walker B motif; other site 243277000130 arginine finger; other site 243277000131 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 243277000132 putative acyl-acceptor binding pocket; other site 243277000133 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 243277000134 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 243277000135 catalytic residues [active] 243277000136 hinge region; other site 243277000137 alpha helical domain; other site 243277000138 Phosphotransferase enzyme family; Region: APH; pfam01636 243277000139 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 243277000140 active site 243277000141 ATP binding site [chemical binding]; other site 243277000142 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 243277000143 4Fe-4S binding domain; Region: Fer4_5; pfam12801 243277000144 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 243277000145 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 243277000146 Protein of unknown function (DUF1040); Region: DUF1040; cl01176 243277000147 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 243277000148 SpoOM protein; Region: Spo0M; pfam07070 243277000149 Haemolysin-III related; Region: HlyIII; cl03831 243277000150 Protein of unknown function (DUF3157); Region: DUF3157; pfam11355 243277000151 Cation transport protein; Region: TrkH; cl10514 243277000152 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 243277000153 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 243277000154 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277000155 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 243277000156 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277000157 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 243277000158 16S rRNA methyltransferase B; Provisional; Region: PRK10901 243277000159 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 243277000160 putative RNA binding site [nucleotide binding]; other site 243277000161 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 243277000162 S-adenosylmethionine binding site [chemical binding]; other site 243277000163 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 243277000164 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 243277000165 putative active site [active] 243277000166 substrate binding site [chemical binding]; other site 243277000167 putative cosubstrate binding site; other site 243277000168 catalytic site [active] 243277000169 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 243277000170 substrate binding site [chemical binding]; other site 243277000171 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 243277000172 active site 243277000173 catalytic residues [active] 243277000174 metal binding site [ion binding]; metal-binding site 243277000175 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 243277000176 putative peptidoglycan binding site; other site 243277000177 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 243277000178 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 243277000179 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 243277000180 Protein of unknown function (DUF494); Region: DUF494; cl01103 243277000181 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 243277000182 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 243277000183 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 243277000184 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 243277000185 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 243277000186 AIR carboxylase; Region: AIRC; cl00310 243277000187 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 243277000188 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 243277000189 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 243277000190 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 243277000191 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 243277000192 shikimate binding site; other site 243277000193 NAD(P) binding site [chemical binding]; other site 243277000194 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 243277000195 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 243277000196 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 243277000197 trimer interface [polypeptide binding]; other site 243277000198 putative metal binding site [ion binding]; other site 243277000199 CrcB-like protein; Region: CRCB; cl09114 243277000200 ThiC family; Region: ThiC; cl08031 243277000201 thiamine-phosphate pyrophosphorylase; Reviewed; Region: thiE; PRK12290 243277000202 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 243277000203 thiamine phosphate binding site [chemical binding]; other site 243277000204 active site 243277000205 pyrophosphate binding site [ion binding]; other site 243277000206 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 243277000207 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 243277000208 ATP binding site [chemical binding]; other site 243277000209 substrate interface [chemical binding]; other site 243277000210 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 243277000211 thiS-thiF/thiG interaction site; other site 243277000212 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 243277000213 ThiS interaction site; other site 243277000214 putative active site [active] 243277000215 tetramer interface [polypeptide binding]; other site 243277000216 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 243277000217 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 243277000218 FeS/SAM binding site; other site 243277000219 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 243277000220 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 243277000221 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 243277000222 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 243277000223 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 243277000224 active site 243277000225 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 243277000226 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277000227 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 243277000228 substrate binding pocket [chemical binding]; other site 243277000229 dimerization interface [polypeptide binding]; other site 243277000230 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 243277000231 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 243277000232 putative substrate translocation pore; other site 243277000233 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 243277000234 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277000235 PAS domain S-box; Region: sensory_box; TIGR00229 243277000236 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 243277000237 putative active site [active] 243277000238 heme pocket [chemical binding]; other site 243277000239 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277000240 metal binding site [ion binding]; metal-binding site 243277000241 active site 243277000242 I-site; other site 243277000243 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 243277000244 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; cl12011 243277000245 EamA-like transporter family; Region: EamA; cl01037 243277000246 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 243277000247 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 243277000248 Ligand Binding Site [chemical binding]; other site 243277000249 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 243277000250 Ferritin-like domain; Region: Ferritin; pfam00210 243277000251 ferroxidase diiron center [ion binding]; other site 243277000252 Universal stress protein B (UspB); Region: UspB; cl11669 243277000253 Predicted flavoproteins [General function prediction only]; Region: COG2081 243277000254 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277000255 EamA-like transporter family; Region: EamA; cl01037 243277000256 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 243277000257 EamA-like transporter family; Region: EamA; cl01037 243277000258 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 243277000259 RmuC family; Region: RmuC; pfam02646 243277000260 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 243277000261 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 243277000262 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 243277000263 SCP-2 sterol transfer family; Region: SCP2; cl01225 243277000264 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 243277000265 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 243277000266 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 243277000267 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 243277000268 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 243277000269 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 243277000270 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 243277000271 MatE; Region: MatE; cl10513 243277000272 MatE; Region: MatE; cl10513 243277000273 Leucine carboxyl methyltransferase; Region: LCM; cl01306 243277000274 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277000275 LexA repressor; Validated; Region: PRK00215 243277000276 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 243277000277 Catalytic site [active] 243277000278 Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]; Region: PlsB; COG2937 243277000279 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 243277000280 putative acyl-acceptor binding pocket; other site 243277000281 UbiA prenyltransferase family; Region: UbiA; cl00337 243277000282 UTRA domain; Region: UTRA; cl01230 243277000283 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 243277000284 PAS fold; Region: PAS_4; pfam08448 243277000285 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 243277000286 putative active site [active] 243277000287 heme pocket [chemical binding]; other site 243277000288 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 243277000289 PAS fold; Region: PAS_3; pfam08447 243277000290 putative active site [active] 243277000291 heme pocket [chemical binding]; other site 243277000292 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 243277000293 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277000294 intramembrane serine protease GlpG; Provisional; Region: PRK10907 243277000295 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 243277000296 Rhomboid family; Region: Rhomboid; cl11446 243277000297 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 243277000298 active site residue [active] 243277000299 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 243277000300 active site 243277000301 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 243277000302 dimer interface [polypeptide binding]; other site 243277000303 allosteric magnesium binding site [ion binding]; other site 243277000304 active site 243277000305 aspartate-rich active site metal binding site; other site 243277000306 Schiff base residues; other site 243277000307 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 243277000308 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 243277000309 Coenzyme A binding pocket [chemical binding]; other site 243277000310 DNA polymerase I; Provisional; Region: PRK05755 243277000311 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 243277000312 active site 243277000313 metal binding site 1 [ion binding]; metal-binding site 243277000314 putative 5' ssDNA interaction site; other site 243277000315 metal binding site 3; metal-binding site 243277000316 metal binding site 2 [ion binding]; metal-binding site 243277000317 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 243277000318 putative DNA binding site [nucleotide binding]; other site 243277000319 putative metal binding site [ion binding]; other site 243277000320 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 243277000321 active site 243277000322 catalytic site [active] 243277000323 substrate binding site [chemical binding]; other site 243277000324 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 243277000325 active site 243277000326 DNA binding site [nucleotide binding] 243277000327 catalytic site [active] 243277000328 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 243277000329 G1 box; other site 243277000330 GTP/Mg2+ binding site [chemical binding]; other site 243277000331 Switch I region; other site 243277000332 G2 box; other site 243277000333 G3 box; other site 243277000334 Switch II region; other site 243277000335 G4 box; other site 243277000336 G5 box; other site 243277000337 Cytochrome c; Region: Cytochrom_C; cl11414 243277000338 Cytochrome c; Region: Cytochrom_C; cl11414 243277000339 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; cl12011 243277000340 Protein of unknown function, DUF414; Region: DUF414; cl01172 243277000341 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 243277000342 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 243277000343 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 243277000344 FeS/SAM binding site; other site 243277000345 HemN C-terminal region; Region: HemN_C; pfam06969 243277000346 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 243277000347 HemY protein N-terminus; Region: HemY_N; pfam07219 243277000348 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 243277000349 HemX; Region: HemX; cl14667 243277000350 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 243277000351 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 243277000352 active site 243277000353 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 243277000354 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 243277000355 domain interfaces; other site 243277000356 active site 243277000357 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 243277000358 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 243277000359 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 243277000360 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cd00503 243277000361 putative iron binding site [ion binding]; other site 243277000362 diaminopimelate decarboxylase; Region: lysA; TIGR01048 243277000363 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 243277000364 active site 243277000365 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 243277000366 substrate binding site [chemical binding]; other site 243277000367 catalytic residues [active] 243277000368 dimer interface [polypeptide binding]; other site 243277000369 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 243277000370 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 243277000371 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 243277000372 Protein of unknown function, DUF484; Region: DUF484; cl01228 243277000373 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 243277000374 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 243277000375 DNA binding site [nucleotide binding] 243277000376 Int/Topo IB signature motif; other site 243277000377 active site 243277000378 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 243277000379 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 243277000380 Uncharacterized conserved protein [Function unknown]; Region: COG3287 243277000381 FIST N domain; Region: FIST; cl10701 243277000382 FIST C domain; Region: FIST_C; pfam10442 243277000383 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277000384 metal binding site [ion binding]; metal-binding site 243277000385 active site 243277000386 I-site; other site 243277000387 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 243277000388 DTW domain; Region: DTW; cl01221 243277000389 Predicted membrane protein [Function unknown]; Region: COG3650 243277000390 putative hydrolase; Provisional; Region: PRK10976 243277000391 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 243277000392 active site 243277000393 motif I; other site 243277000394 motif II; other site 243277000395 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 243277000396 lysophospholipase L2; Provisional; Region: PRK10749 243277000397 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 243277000398 LysE type translocator; Region: LysE; cl00565 243277000399 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 243277000400 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 243277000401 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 243277000402 dimerization interface [polypeptide binding]; other site 243277000403 DPS ferroxidase diiron center [ion binding]; other site 243277000404 ion pore; other site 243277000405 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 243277000406 YhhN-like protein; Region: YhhN; cl01505 243277000407 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 243277000408 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 243277000409 S-adenosylmethionine binding site [chemical binding]; other site 243277000410 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 243277000411 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 243277000412 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 243277000413 P loop; other site 243277000414 GTP binding site [chemical binding]; other site 243277000415 cell division protein FtsE; Provisional; Region: PRK10908 243277000416 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277000417 Walker A/P-loop; other site 243277000418 ATP binding site [chemical binding]; other site 243277000419 Q-loop/lid; other site 243277000420 ABC transporter signature motif; other site 243277000421 Walker B; other site 243277000422 D-loop; other site 243277000423 H-loop/switch region; other site 243277000424 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 243277000425 FtsX-like permease family; Region: FtsX; pfam02687 243277000426 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 243277000427 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 243277000428 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 243277000429 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 243277000430 DNA binding residues [nucleotide binding] 243277000431 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 243277000432 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277000433 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 243277000434 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 243277000435 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277000436 Protein of unknown function (DUF1422); Region: DUF1422; cl11649 243277000437 tRNA (Uracil-5-)-methyltransferase; Region: tRNA_U5-meth_tr; pfam05958 243277000438 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 243277000439 S-adenosylmethionine binding site [chemical binding]; other site 243277000440 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 243277000441 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 243277000442 N-terminal plug; other site 243277000443 ligand-binding site [chemical binding]; other site 243277000444 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 243277000445 Peptidase S8 family domain in ProteinaseK-like proteins; Region: Peptidases_S8_PCSK9_ProteinaseK_like; cd04077 243277000446 calcium binding site 2 [ion binding]; other site 243277000447 active site 243277000448 catalytic triad [active] 243277000449 calcium binding site 1 [ion binding]; other site 243277000450 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 243277000451 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 243277000452 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 243277000453 RNA/DNA binding site [nucleotide binding]; other site 243277000454 RRM dimerization site [polypeptide binding]; other site 243277000455 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277000456 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 243277000457 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 243277000458 putative dimerization interface [polypeptide binding]; other site 243277000459 ketol-acid reductoisomerase; Validated; Region: PRK05225 243277000460 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277000461 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 243277000462 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 243277000463 Membrane fusogenic activity; Region: BMFP; cl01115 243277000464 multidrug efflux protein; Reviewed; Region: PRK09579 243277000465 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 243277000466 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 243277000467 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277000468 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 243277000469 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277000470 Cytochrome c; Region: Cytochrom_C; cl11414 243277000471 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 243277000472 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 243277000473 Walker A/P-loop; other site 243277000474 ATP binding site [chemical binding]; other site 243277000475 Q-loop/lid; other site 243277000476 ABC transporter signature motif; other site 243277000477 Walker B; other site 243277000478 D-loop; other site 243277000479 H-loop/switch region; other site 243277000480 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 243277000481 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 243277000482 Walker A/P-loop; other site 243277000483 ATP binding site [chemical binding]; other site 243277000484 Q-loop/lid; other site 243277000485 ABC transporter signature motif; other site 243277000486 Walker B; other site 243277000487 D-loop; other site 243277000488 H-loop/switch region; other site 243277000489 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 243277000490 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 243277000491 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 243277000492 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 243277000493 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277000494 dimer interface [polypeptide binding]; other site 243277000495 conserved gate region; other site 243277000496 putative PBP binding loops; other site 243277000497 ABC-ATPase subunit interface; other site 243277000498 dipeptide transporter; Provisional; Region: PRK10913 243277000499 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277000500 dimer interface [polypeptide binding]; other site 243277000501 conserved gate region; other site 243277000502 putative PBP binding loops; other site 243277000503 ABC-ATPase subunit interface; other site 243277000504 hypothetical protein; Provisional; Region: PRK01184 243277000505 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 243277000506 catalytic motif [active] 243277000507 Zn binding site [ion binding]; other site 243277000508 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 243277000509 sequence-specific DNA binding site [nucleotide binding]; other site 243277000510 salt bridge; other site 243277000511 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 243277000512 active site 243277000513 nucleophile elbow; other site 243277000514 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 243277000515 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 243277000516 ATP binding site [chemical binding]; other site 243277000517 substrate interface [chemical binding]; other site 243277000518 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 243277000519 Phage integrase family; Region: Phage_integrase; pfam00589 243277000520 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 243277000521 DNA binding site [nucleotide binding] 243277000522 Int/Topo IB signature motif; other site 243277000523 active site 243277000524 catalytic residues [active] 243277000525 glutathione reductase; Validated; Region: PRK06116 243277000526 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277000527 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 243277000528 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 243277000529 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 243277000530 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 243277000531 active site 243277000532 Zn binding site [ion binding]; other site 243277000533 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 243277000534 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277000535 LysE type translocator; Region: LysE; cl00565 243277000536 Cupin domain; Region: Cupin_2; cl09118 243277000537 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 243277000538 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 243277000539 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 243277000540 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 243277000541 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 243277000542 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 243277000543 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 243277000544 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 243277000545 ATP binding site [chemical binding]; other site 243277000546 putative Mg++ binding site [ion binding]; other site 243277000547 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 243277000548 nucleotide binding region [chemical binding]; other site 243277000549 ATP-binding site [chemical binding]; other site 243277000550 RQC domain; Region: RQC; cl09632 243277000551 HRDC domain; Region: HRDC; cl02578 243277000552 Protein of unknown function (DUF3630); Region: DUF3630; pfam12305 243277000553 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 243277000554 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 243277000555 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277000556 Walker A/P-loop; other site 243277000557 ATP binding site [chemical binding]; other site 243277000558 Q-loop/lid; other site 243277000559 ABC transporter signature motif; other site 243277000560 Walker B; other site 243277000561 D-loop; other site 243277000562 H-loop/switch region; other site 243277000563 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 243277000564 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 243277000565 N-terminal plug; other site 243277000566 ligand-binding site [chemical binding]; other site 243277000567 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 243277000568 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 243277000569 Walker A/P-loop; other site 243277000570 ATP binding site [chemical binding]; other site 243277000571 Q-loop/lid; other site 243277000572 ABC transporter signature motif; other site 243277000573 Walker B; other site 243277000574 D-loop; other site 243277000575 H-loop/switch region; other site 243277000576 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 243277000577 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 243277000578 siderophore binding site; other site 243277000579 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 243277000580 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 243277000581 ABC-ATPase subunit interface; other site 243277000582 dimer interface [polypeptide binding]; other site 243277000583 putative PBP binding regions; other site 243277000584 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 243277000585 ABC-ATPase subunit interface; other site 243277000586 dimer interface [polypeptide binding]; other site 243277000587 putative PBP binding regions; other site 243277000588 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 243277000589 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 243277000590 putative active site [active] 243277000591 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 243277000592 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 243277000593 putative active site [active] 243277000594 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 243277000595 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 243277000596 active site turn [active] 243277000597 phosphorylation site [posttranslational modification] 243277000598 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 243277000599 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 243277000600 hypothetical protein; Provisional; Region: PRK11820 243277000601 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 243277000602 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 243277000603 ribonuclease PH; Reviewed; Region: rph; PRK00173 243277000604 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 243277000605 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 243277000606 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 243277000607 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277000608 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 243277000609 putative acyl-acceptor binding pocket; other site 243277000610 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 243277000611 putative acyl-acceptor binding pocket; other site 243277000612 division inhibitor protein; Provisional; Region: slmA; PRK09480 243277000613 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277000614 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 243277000615 Flavoprotein; Region: Flavoprotein; cl08021 243277000616 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 243277000617 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 243277000618 Cache domain; Region: Cache_2; cl07034 243277000619 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 243277000620 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 243277000621 dimerization interface [polypeptide binding]; other site 243277000622 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277000623 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277000624 hypothetical protein; Reviewed; Region: PRK00024 243277000625 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 243277000626 MPN+ (JAMM) motif; other site 243277000627 Zinc-binding site [ion binding]; other site 243277000628 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 243277000629 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 243277000630 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 243277000631 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 243277000632 DNA binding site [nucleotide binding] 243277000633 catalytic residue [active] 243277000634 H2TH interface [polypeptide binding]; other site 243277000635 putative catalytic residues [active] 243277000636 turnover-facilitating residue; other site 243277000637 intercalation triad [nucleotide binding]; other site 243277000638 8OG recognition residue [nucleotide binding]; other site 243277000639 putative reading head residues; other site 243277000640 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 243277000641 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 243277000642 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 243277000643 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 243277000644 active site 243277000645 (T/H)XGH motif; other site 243277000646 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 243277000647 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 243277000648 putative active site [active] 243277000649 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 243277000650 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 243277000651 putative metal binding site; other site 243277000652 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 243277000653 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 243277000654 putative active site [active] 243277000655 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 243277000656 ATP binding site [chemical binding]; other site 243277000657 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 243277000658 WavE lipopolysaccharide synthesis; Region: WavE; pfam07507 243277000659 WavE lipopolysaccharide synthesis; Region: WavE; pfam07507 243277000660 GT2_BcbE_like is likely involved in the biosynthesis of the polysaccharide capsule; Region: GT2_BcE_like; cd04183 243277000661 Ligand binding site; other site 243277000662 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 243277000663 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 243277000664 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 243277000665 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 243277000666 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 243277000667 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 243277000668 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 243277000669 putative active site [active] 243277000670 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 243277000671 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 243277000672 putative active site [active] 243277000673 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 243277000674 O-Antigen ligase; Region: Wzy_C; cl04850 243277000675 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 243277000676 trimer interface [polypeptide binding]; other site 243277000677 active site 243277000678 substrate binding site [chemical binding]; other site 243277000679 CoA binding site [chemical binding]; other site 243277000680 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 243277000681 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 243277000682 putative ADP-binding pocket [chemical binding]; other site 243277000683 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 243277000684 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 243277000685 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 243277000686 NADP binding site [chemical binding]; other site 243277000687 homopentamer interface [polypeptide binding]; other site 243277000688 substrate binding site [chemical binding]; other site 243277000689 active site 243277000690 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 243277000691 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 243277000692 Substrate binding site; other site 243277000693 Cupin domain; Region: Cupin_2; cl09118 243277000694 phosphomannomutase CpsG; Provisional; Region: PRK15414 243277000695 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 243277000696 active site 243277000697 substrate binding site [chemical binding]; other site 243277000698 metal binding site [ion binding]; metal-binding site 243277000699 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 243277000700 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 243277000701 NADP-binding site; other site 243277000702 homotetramer interface [polypeptide binding]; other site 243277000703 substrate binding site [chemical binding]; other site 243277000704 homodimer interface [polypeptide binding]; other site 243277000705 active site 243277000706 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 243277000707 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 243277000708 inhibitor-cofactor binding pocket; inhibition site 243277000709 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243277000710 catalytic residue [active] 243277000711 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 243277000712 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 243277000713 ABC-2 type transporter; Region: ABC2_membrane; cl11417 243277000714 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 243277000715 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 243277000716 Walker A/P-loop; other site 243277000717 ATP binding site [chemical binding]; other site 243277000718 Q-loop/lid; other site 243277000719 ABC transporter signature motif; other site 243277000720 Walker B; other site 243277000721 D-loop; other site 243277000722 H-loop/switch region; other site 243277000723 Phosphopantetheine attachment site; Region: PP-binding; cl09936 243277000724 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 243277000725 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 243277000726 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 243277000727 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 243277000728 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 243277000729 active site 243277000730 NAD binding site [chemical binding]; other site 243277000731 metal binding site [ion binding]; metal-binding site 243277000732 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 243277000733 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 243277000734 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 243277000735 NAD(P) binding site [chemical binding]; other site 243277000736 catalytic residues [active] 243277000737 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 243277000738 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 243277000739 trimer interface [polypeptide binding]; other site 243277000740 active site 243277000741 substrate binding site [chemical binding]; other site 243277000742 CoA binding site [chemical binding]; other site 243277000743 similar to IS1004 transposase; similar to GB:X59554 PID:581823; identified by sequence similarity; putative 243277000744 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; cl12011 243277000745 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277000746 putative transposase OrfB; Reviewed; Region: PHA02517 243277000747 Integrase core domain; Region: rve; cl01316 243277000748 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; cl12011 243277000749 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 243277000750 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 243277000751 putative ADP-binding pocket [chemical binding]; other site 243277000752 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 243277000753 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 243277000754 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 243277000755 NAD(P) binding site [chemical binding]; other site 243277000756 homodimer interface [polypeptide binding]; other site 243277000757 substrate binding site [chemical binding]; other site 243277000758 active site 243277000759 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 243277000760 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 243277000761 putative NAD(P) binding site [chemical binding]; other site 243277000762 active site 243277000763 putative substrate binding site [chemical binding]; other site 243277000764 Bacterial sugar transferase; Region: Bac_transf; cl00939 243277000765 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 243277000766 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 243277000767 Beta-Casp domain; Region: Beta-Casp; cl12567 243277000768 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 243277000769 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 243277000770 Mechanosensitive ion channel; Region: MS_channel; pfam00924 243277000771 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 243277000772 putative uracil binding site [chemical binding]; other site 243277000773 putative active site [active] 243277000774 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 243277000775 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277000776 Protein of unknown function (DUF416); Region: DUF416; cl01166 243277000777 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 243277000778 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 243277000779 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 243277000780 fructokinase; Reviewed; Region: PRK09557 243277000781 Domain of unknown function DUF21; Region: DUF21; pfam01595 243277000782 FOG: CBS domain [General function prediction only]; Region: COG0517 243277000783 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 243277000784 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 243277000785 IHF dimer interface [polypeptide binding]; other site 243277000786 IHF - DNA interface [nucleotide binding]; other site 243277000787 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 243277000788 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 243277000789 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 243277000790 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 243277000791 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 243277000792 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 243277000793 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 243277000794 purine monophosphate binding site [chemical binding]; other site 243277000795 dimer interface [polypeptide binding]; other site 243277000796 putative catalytic residues [active] 243277000797 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 243277000798 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 243277000799 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 243277000800 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 243277000801 DNA binding residues [nucleotide binding] 243277000802 dimer interface [polypeptide binding]; other site 243277000803 metal binding site [ion binding]; metal-binding site 243277000804 DNA-binding transcriptional activator CadC; Provisional; Region: PRK10153 243277000805 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 243277000806 DNA binding site [nucleotide binding] 243277000807 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 243277000808 Amino acid permease; Region: AA_permease; cl00524 243277000809 lysine decarboxylase CadA; Provisional; Region: PRK15400 243277000810 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 243277000811 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 243277000812 homodimer interface [polypeptide binding]; other site 243277000813 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243277000814 catalytic residue [active] 243277000815 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 243277000816 Cache domain; Region: Cache_2; cl07034 243277000817 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 243277000818 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277000819 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277000820 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 243277000821 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 243277000822 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 243277000823 active site 243277000824 intersubunit interface [polypeptide binding]; other site 243277000825 catalytic residue [active] 243277000826 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 243277000827 GntP family permease; Region: GntP_permease; cl15264 243277000828 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 243277000829 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 243277000830 ATP-binding site [chemical binding]; other site 243277000831 Gluconate-6-phosphate binding site [chemical binding]; other site 243277000832 Dehydratase family; Region: ILVD_EDD; cl00340 243277000833 6-phosphogluconate dehydratase; Region: edd; TIGR01196 243277000834 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 243277000835 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 243277000836 DNA binding site [nucleotide binding] 243277000837 domain linker motif; other site 243277000838 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 243277000839 putative ligand binding site [chemical binding]; other site 243277000840 putative dimerization interface [polypeptide binding]; other site 243277000841 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277000842 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 243277000843 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 243277000844 FMN binding site [chemical binding]; other site 243277000845 active site 243277000846 catalytic residues [active] 243277000847 substrate binding site [chemical binding]; other site 243277000848 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 243277000849 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; cl12011 243277000850 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 243277000851 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 243277000852 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 243277000853 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 243277000854 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 243277000855 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 243277000856 carboxyltransferase (CT) interaction site; other site 243277000857 biotinylation site [posttranslational modification]; other site 243277000858 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 243277000859 active site 243277000860 trimer interface [polypeptide binding]; other site 243277000861 dimer interface [polypeptide binding]; other site 243277000862 acetyl-CoA synthetase; Provisional; Region: PRK00174 243277000863 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 243277000864 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 243277000865 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 243277000866 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 243277000867 active site 243277000868 substrate binding site [chemical binding]; other site 243277000869 catalytic site [active] 243277000870 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 243277000871 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 243277000872 ligand binding site [chemical binding]; other site 243277000873 flexible hinge region; other site 243277000874 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the bacterial CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain. Members of CAP_ED, include CAP...; Region: CBS_pair_CAP-ED_DUF294_assoc_bac; cd04589 243277000875 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 243277000876 metal binding triad; other site 243277000877 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 243277000878 MFS_1 like family; Region: MFS_1_like; pfam12832 243277000879 Sodium:solute symporter family; Region: SSF; cl00456 243277000880 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 243277000881 PAS fold; Region: PAS_7; pfam12860 243277000882 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 243277000883 dimer interface [polypeptide binding]; other site 243277000884 phosphorylation site [posttranslational modification] 243277000885 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277000886 ATP binding site [chemical binding]; other site 243277000887 Mg2+ binding site [ion binding]; other site 243277000888 G-X-G motif; other site 243277000889 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 243277000890 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277000891 active site 243277000892 phosphorylation site [posttranslational modification] 243277000893 intermolecular recognition site; other site 243277000894 dimerization interface [polypeptide binding]; other site 243277000895 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 243277000896 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 243277000897 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 243277000898 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 243277000899 ATP binding site [chemical binding]; other site 243277000900 Mg++ binding site [ion binding]; other site 243277000901 motif III; other site 243277000902 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 243277000903 nucleotide binding region [chemical binding]; other site 243277000904 ATP-binding site [chemical binding]; other site 243277000905 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 243277000906 catalytic residues [active] 243277000907 transcription termination factor Rho; Provisional; Region: rho; PRK09376 243277000908 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 243277000909 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 243277000910 RNA binding site [nucleotide binding]; other site 243277000911 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 243277000912 multimer interface [polypeptide binding]; other site 243277000913 Walker A motif; other site 243277000914 ATP binding site [chemical binding]; other site 243277000915 Walker B motif; other site 243277000916 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 243277000917 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 243277000918 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 243277000919 catalytic loop [active] 243277000920 iron binding site [ion binding]; other site 243277000921 FMN reductase; Validated; Region: fre; PRK08051 243277000922 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 243277000923 FAD binding pocket [chemical binding]; other site 243277000924 FAD binding motif [chemical binding]; other site 243277000925 phosphate binding motif [ion binding]; other site 243277000926 beta-alpha-beta structure motif; other site 243277000927 NAD binding pocket [chemical binding]; other site 243277000928 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 243277000929 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 243277000930 domain interface [polypeptide binding]; other site 243277000931 putative active site [active] 243277000932 catalytic site [active] 243277000933 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 243277000934 domain interface [polypeptide binding]; other site 243277000935 putative active site [active] 243277000936 catalytic site [active] 243277000937 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 243277000938 Coenzyme A binding pocket [chemical binding]; other site 243277000939 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277000940 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 243277000941 FAD binding domain; Region: FAD_binding_4; pfam01565 243277000942 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 243277000943 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277000944 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 243277000945 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 243277000946 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 243277000947 pantothenate kinase; Provisional; Region: PRK05439 243277000948 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in...; Region: PanK; cd02025 243277000949 ATP-binding site [chemical binding]; other site 243277000950 CoA-binding site [chemical binding]; other site 243277000951 Mg2+-binding site [ion binding]; other site 243277000952 elongation factor Tu; Reviewed; Region: PRK00049 243277000953 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 243277000954 G1 box; other site 243277000955 GEF interaction site [polypeptide binding]; other site 243277000956 GTP/Mg2+ binding site [chemical binding]; other site 243277000957 Switch I region; other site 243277000958 G2 box; other site 243277000959 G3 box; other site 243277000960 Switch II region; other site 243277000961 G4 box; other site 243277000962 G5 box; other site 243277000963 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 243277000964 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 243277000965 Antibiotic Binding Site [chemical binding]; other site 243277000966 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 243277000967 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 243277000968 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 243277000969 putative homodimer interface [polypeptide binding]; other site 243277000970 KOW motif; Region: KOW; cl00354 243277000971 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 243277000972 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 243277000973 23S rRNA interface [nucleotide binding]; other site 243277000974 L7/L12 interface [polypeptide binding]; other site 243277000975 putative thiostrepton binding site; other site 243277000976 L25 interface [polypeptide binding]; other site 243277000977 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 243277000978 mRNA/rRNA interface [nucleotide binding]; other site 243277000979 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 243277000980 23S rRNA interface [nucleotide binding]; other site 243277000981 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 243277000982 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 243277000983 core dimer interface [polypeptide binding]; other site 243277000984 peripheral dimer interface [polypeptide binding]; other site 243277000985 L10 interface [polypeptide binding]; other site 243277000986 L11 interface [polypeptide binding]; other site 243277000987 putative EF-Tu interaction site [polypeptide binding]; other site 243277000988 putative EF-G interaction site [polypeptide binding]; other site 243277000989 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 243277000990 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 243277000991 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 243277000992 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 243277000993 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 243277000994 RPB11 interaction site [polypeptide binding]; other site 243277000995 RPB12 interaction site [polypeptide binding]; other site 243277000996 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 243277000997 RPB3 interaction site [polypeptide binding]; other site 243277000998 RPB1 interaction site [polypeptide binding]; other site 243277000999 RPB11 interaction site [polypeptide binding]; other site 243277001000 RPB10 interaction site [polypeptide binding]; other site 243277001001 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 243277001002 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 243277001003 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 243277001004 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 243277001005 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 243277001006 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 243277001007 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 243277001008 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 243277001009 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 243277001010 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 243277001011 DNA binding site [nucleotide binding] 243277001012 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 243277001013 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; cl11478 243277001014 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 243277001015 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 243277001016 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 243277001017 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 243277001018 putative NADH binding site [chemical binding]; other site 243277001019 putative active site [active] 243277001020 nudix motif; other site 243277001021 putative metal binding site [ion binding]; other site 243277001022 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 243277001023 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 243277001024 substrate binding site [chemical binding]; other site 243277001025 active site 243277001026 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 243277001027 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277001028 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 243277001029 Sulfatase; Region: Sulfatase; cl10460 243277001030 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 243277001031 EamA-like transporter family; Region: EamA; cl01037 243277001032 EamA-like transporter family; Region: EamA; cl01037 243277001033 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 243277001034 transmembrane helices; other site 243277001035 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 243277001036 GTPase RsgA; Reviewed; Region: PRK12288 243277001037 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs...; Region: YjeQ_engC; cd01854 243277001038 GTPase/OB domain interface [polypeptide binding]; other site 243277001039 GTPase/Zn-binding domain interface [polypeptide binding]; other site 243277001040 GTP/Mg2+ binding site [chemical binding]; other site 243277001041 G4 box; other site 243277001042 G5 box; other site 243277001043 G1 box; other site 243277001044 Switch I region; other site 243277001045 G2 box; other site 243277001046 G3 box; other site 243277001047 Switch II region; other site 243277001048 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 243277001049 putative active site [active] 243277001050 putative substrate binding site [chemical binding]; other site 243277001051 catalytic site [active] 243277001052 dimer interface [polypeptide binding]; other site 243277001053 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 243277001054 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 243277001055 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 243277001056 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 243277001057 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 243277001058 active site 243277001059 metal binding site [ion binding]; metal-binding site 243277001060 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 243277001061 putative peptidoglycan binding site; other site 243277001062 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 243277001063 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 243277001064 putative peptidoglycan binding site; other site 243277001065 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 243277001066 putative peptidoglycan binding site; other site 243277001067 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 243277001068 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277001069 ATP binding site [chemical binding]; other site 243277001070 Mg2+ binding site [ion binding]; other site 243277001071 G-X-G motif; other site 243277001072 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 243277001073 ATP binding site [chemical binding]; other site 243277001074 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 243277001075 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 243277001076 IPP transferase; Region: IPPT; cl00403 243277001077 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 243277001078 Sm1 motif; other site 243277001079 intra - hexamer interaction site; other site 243277001080 inter - hexamer interaction site [polypeptide binding]; other site 243277001081 nucleotide binding pocket [chemical binding]; other site 243277001082 Sm2 motif; other site 243277001083 GTPase HflX; Provisional; Region: PRK11058 243277001084 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 243277001085 G1 box; other site 243277001086 GTP/Mg2+ binding site [chemical binding]; other site 243277001087 Switch I region; other site 243277001088 G2 box; other site 243277001089 G3 box; other site 243277001090 Switch II region; other site 243277001091 G4 box; other site 243277001092 G5 box; other site 243277001093 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 243277001094 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 243277001095 HflK protein; Region: hflK; TIGR01933 243277001096 HflC protein; Region: hflC; TIGR01932 243277001097 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 243277001098 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 243277001099 SlyX; Region: SlyX; cl01090 243277001100 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 243277001101 structural tetrad; other site 243277001102 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 243277001103 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 243277001104 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 243277001105 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 243277001106 YheO-like PAS domain; Region: PAS_6; pfam08348 243277001107 DsrE/DsrF-like family; Region: DrsE; cl00672 243277001108 DsrE/DsrF-like family; Region: DrsE; cl00672 243277001109 DsrE/DsrF-like family; Region: DrsE; cl00672 243277001110 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 243277001111 S17 interaction site [polypeptide binding]; other site 243277001112 S8 interaction site; other site 243277001113 16S rRNA interaction site [nucleotide binding]; other site 243277001114 streptomycin interaction site [chemical binding]; other site 243277001115 23S rRNA interaction site [nucleotide binding]; other site 243277001116 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 243277001117 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 243277001118 elongation factor G; Reviewed; Region: PRK00007 243277001119 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so...; Region: EF-G; cd01886 243277001120 G1 box; other site 243277001121 putative GEF interaction site [polypeptide binding]; other site 243277001122 GTP/Mg2+ binding site [chemical binding]; other site 243277001123 Switch I region; other site 243277001124 G2 box; other site 243277001125 G3 box; other site 243277001126 Switch II region; other site 243277001127 G4 box; other site 243277001128 G5 box; other site 243277001129 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 243277001130 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 243277001131 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 243277001132 elongation factor Tu; Reviewed; Region: PRK00049 243277001133 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 243277001134 G1 box; other site 243277001135 GEF interaction site [polypeptide binding]; other site 243277001136 GTP/Mg2+ binding site [chemical binding]; other site 243277001137 Switch I region; other site 243277001138 G2 box; other site 243277001139 G3 box; other site 243277001140 Switch II region; other site 243277001141 G4 box; other site 243277001142 G5 box; other site 243277001143 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 243277001144 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 243277001145 Antibiotic Binding Site [chemical binding]; other site 243277001146 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 243277001147 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 243277001148 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 243277001149 heme binding site [chemical binding]; other site 243277001150 ferroxidase pore; other site 243277001151 ferroxidase diiron center [ion binding]; other site 243277001152 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 243277001153 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 243277001154 dimer interface [polypeptide binding]; other site 243277001155 ssDNA binding site [nucleotide binding]; other site 243277001156 tetramer (dimer of dimers) interface [polypeptide binding]; other site 243277001157 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 243277001158 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 243277001159 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 243277001160 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 243277001161 Protein of unknown function, DUF481; Region: DUF481; cl01213 243277001162 replicative DNA helicase; Provisional; Region: PRK08840 243277001163 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 243277001164 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 243277001165 Walker A motif; other site 243277001166 ATP binding site [chemical binding]; other site 243277001167 Walker B motif; other site 243277001168 DNA binding loops [nucleotide binding] 243277001169 alanine racemase; Reviewed; Region: alr; PRK00053 243277001170 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 243277001171 active site 243277001172 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 243277001173 substrate binding site [chemical binding]; other site 243277001174 catalytic residues [active] 243277001175 dimer interface [polypeptide binding]; other site 243277001176 Uncharacterised protein family UPF0047; Region: UPF0047; cl00439 243277001177 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 243277001178 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 243277001179 active site 243277001180 dimer interface [polypeptide binding]; other site 243277001181 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 243277001182 dimer interface [polypeptide binding]; other site 243277001183 active site 243277001184 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 243277001185 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 243277001186 CheC-like family; Region: CheC; pfam04509 243277001187 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 243277001188 metal binding site 2 [ion binding]; metal-binding site 243277001189 putative DNA binding helix; other site 243277001190 metal binding site 1 [ion binding]; metal-binding site 243277001191 dimer interface [polypeptide binding]; other site 243277001192 structural Zn2+ binding site [ion binding]; other site 243277001193 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 243277001194 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 243277001195 FMN binding site [chemical binding]; other site 243277001196 active site 243277001197 catalytic residues [active] 243277001198 substrate binding site [chemical binding]; other site 243277001199 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 243277001200 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 243277001201 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; cd06199 243277001202 FAD binding pocket [chemical binding]; other site 243277001203 FAD binding motif [chemical binding]; other site 243277001204 catalytic residues [active] 243277001205 NAD binding pocket [chemical binding]; other site 243277001206 phosphate binding motif [ion binding]; other site 243277001207 beta-alpha-beta structure motif; other site 243277001208 sulfite reductase subunit beta; Provisional; Region: PRK13504 243277001209 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 243277001210 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 243277001211 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 243277001212 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 243277001213 Active Sites [active] 243277001214 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 243277001215 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 243277001216 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 243277001217 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 243277001218 substrate binding pocket [chemical binding]; other site 243277001219 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 243277001220 B12 binding site [chemical binding]; other site 243277001221 cobalt ligand [ion binding]; other site 243277001222 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 243277001223 aspartate kinase III; Validated; Region: PRK09084 243277001224 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 243277001225 nucleotide binding site [chemical binding]; other site 243277001226 substrate binding site [chemical binding]; other site 243277001227 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 243277001228 lysine allosteric regulatory site; other site 243277001229 dimer interface [polypeptide binding]; other site 243277001230 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 243277001231 dimer interface [polypeptide binding]; other site 243277001232 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 243277001233 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 243277001234 homodimer interface [polypeptide binding]; other site 243277001235 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243277001236 catalytic residue [active] 243277001237 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 243277001238 O-Antigen ligase; Region: Wzy_C; cl04850 243277001239 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 243277001240 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 243277001241 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 243277001242 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 243277001243 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 243277001244 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 243277001245 active site 243277001246 tetramer interface; other site 243277001247 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 243277001248 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 243277001249 DNA binding residues [nucleotide binding] 243277001250 dimerization interface [polypeptide binding]; other site 243277001251 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 243277001252 dimer interface [polypeptide binding]; other site 243277001253 ssDNA binding site [nucleotide binding]; other site 243277001254 tetramer (dimer of dimers) interface [polypeptide binding]; other site 243277001255 regulatory protein CsrD; Provisional; Region: PRK11059 243277001256 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277001257 metal binding site [ion binding]; metal-binding site 243277001258 active site 243277001259 I-site; other site 243277001260 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 243277001261 Pilus assembly protein, PilO; Region: PilO; cl01234 243277001262 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 243277001263 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 243277001264 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 243277001265 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 243277001266 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277001267 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 243277001268 binding surface 243277001269 TPR motif; other site 243277001270 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 243277001271 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 243277001272 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277001273 Walker A motif; other site 243277001274 ATP binding site [chemical binding]; other site 243277001275 Walker B motif; other site 243277001276 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 243277001277 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 243277001278 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 243277001279 legume lectins; Region: lectin_L-type; cl14058 243277001280 homotetramer interaction site [polypeptide binding]; other site 243277001281 homodimer interaction site [polypeptide binding]; other site 243277001282 carbohydrate binding site [chemical binding]; other site 243277001283 metal binding site [ion binding]; metal-binding site 243277001284 rod shape-determining protein MreB; Provisional; Region: PRK13927 243277001285 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 243277001286 ATP binding site [chemical binding]; other site 243277001287 profilin binding site; other site 243277001288 rod shape-determining protein MreC; Provisional; Region: PRK13922 243277001289 rod shape-determining protein MreC; Region: MreC; pfam04085 243277001290 rod shape-determining protein MreD; Region: MreD; cl01087 243277001291 Maf-like protein; Region: Maf; pfam02545 243277001292 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 243277001293 active site 243277001294 dimer interface [polypeptide binding]; other site 243277001295 ribonuclease G; Provisional; Region: PRK11712 243277001296 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 243277001297 homodimer interface [polypeptide binding]; other site 243277001298 oligonucleotide binding site [chemical binding]; other site 243277001299 TIGR02099 family protein; Region: TIGR02099 243277001300 hypothetical protein; Provisional; Region: PRK10899 243277001301 Predicted amidohydrolase [General function prediction only]; Region: COG0388 243277001302 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 243277001303 putative active site [active] 243277001304 catalytic triad [active] 243277001305 dimer interface [polypeptide binding]; other site 243277001306 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 243277001307 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 243277001308 Amidinotransferase; Region: Amidinotransf; cl12043 243277001309 RNase E inhibitor protein; Provisional; Region: PRK11191 243277001310 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 243277001311 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 243277001312 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 243277001313 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 243277001314 Ligand Binding Site [chemical binding]; other site 243277001315 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 243277001316 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 243277001317 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 243277001318 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 243277001319 arginine repressor; Provisional; Region: PRK05066 243277001320 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 243277001321 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 243277001322 malate dehydrogenase; Provisional; Region: PRK05086 243277001323 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 243277001324 NAD binding site [chemical binding]; other site 243277001325 dimerization interface [polypeptide binding]; other site 243277001326 Substrate binding site [chemical binding]; other site 243277001327 Amino acid permease; Region: AA_permease; cl00524 243277001328 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 243277001329 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 243277001330 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 243277001331 substrate binding pocket [chemical binding]; other site 243277001332 chain length determination region; other site 243277001333 substrate-Mg2+ binding site; other site 243277001334 catalytic residues [active] 243277001335 aspartate-rich region 1; other site 243277001336 active site lid residues [active] 243277001337 aspartate-rich region 2; other site 243277001338 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 243277001339 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 243277001340 GTPase CgtA; Reviewed; Region: obgE; PRK12298 243277001341 GTP1/OBG; Region: GTP1_OBG; pfam01018 243277001342 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 243277001343 G1 box; other site 243277001344 GTP/Mg2+ binding site [chemical binding]; other site 243277001345 Switch I region; other site 243277001346 G2 box; other site 243277001347 G3 box; other site 243277001348 Switch II region; other site 243277001349 G4 box; other site 243277001350 G5 box; other site 243277001351 Uncharacterized conserved protein [Function unknown]; Region: COG2966 243277001352 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 243277001353 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 243277001354 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 243277001355 folate binding site [chemical binding]; other site 243277001356 NADP+ binding site [chemical binding]; other site 243277001357 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 243277001358 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 243277001359 active site 243277001360 metal binding site [ion binding]; metal-binding site 243277001361 Protein of unknown function (DUF525); Region: DUF525; cl01119 243277001362 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; cl12011 243277001363 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 243277001364 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 243277001365 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 243277001366 SurA N-terminal domain; Region: SurA_N; pfam09312 243277001367 PPIC-type PPIASE domain; Region: Rotamase; cl08278 243277001368 PPIC-type PPIASE domain; Region: Rotamase; cl08278 243277001369 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 243277001370 OstA-like protein; Region: OstA; cl00844 243277001371 Organic solvent tolerance protein; Region: OstA_C; pfam04453 243277001372 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 243277001373 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 243277001374 putative metal binding site [ion binding]; other site 243277001375 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 243277001376 HSP70 interaction site [polypeptide binding]; other site 243277001377 Cache domain; Region: Cache_2; cl07034 243277001378 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277001379 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277001380 murein transglycosylase C; Provisional; Region: mltC; PRK11671 243277001381 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 243277001382 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 243277001383 N-acetyl-D-glucosamine binding site [chemical binding]; other site 243277001384 catalytic residue [active] 243277001385 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 243277001386 adenine DNA glycosylase; Provisional; Region: PRK10880 243277001387 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 243277001388 minor groove reading motif; other site 243277001389 helix-hairpin-helix signature motif; other site 243277001390 substrate binding pocket [chemical binding]; other site 243277001391 active site 243277001392 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 243277001393 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 243277001394 DNA binding and oxoG recognition site [nucleotide binding] 243277001395 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; cl12011 243277001396 Glutaminase; Region: Glutaminase; cl00907 243277001397 HemN family oxidoreductase; Provisional; Region: PRK05660 243277001398 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 243277001399 FeS/SAM binding site; other site 243277001400 HemN C-terminal region; Region: HemN_C; pfam06969 243277001401 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 243277001402 active site 243277001403 dimerization interface [polypeptide binding]; other site 243277001404 Uncharacterised ACR, YggU family COG1872; Region: DUF167; cl00811 243277001405 YGGT family; Region: YGGT; cl00508 243277001406 YGGT family; Region: YGGT; cl00508 243277001407 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 243277001408 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277001409 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 243277001410 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 243277001411 catalytic residue [active] 243277001412 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 243277001413 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 243277001414 Walker A motif; other site 243277001415 ATP binding site [chemical binding]; other site 243277001416 Walker B motif; other site 243277001417 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 243277001418 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 243277001419 Walker A motif; other site 243277001420 ATP binding site [chemical binding]; other site 243277001421 Walker B motif; other site 243277001422 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 243277001423 DNA binding residues [nucleotide binding] 243277001424 dimerization interface [polypeptide binding]; other site 243277001425 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 243277001426 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 243277001427 active site 243277001428 HIGH motif; other site 243277001429 dimer interface [polypeptide binding]; other site 243277001430 KMSKS motif; other site 243277001431 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 243277001432 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 243277001433 glutathione synthetase; Provisional; Region: PRK05246 243277001434 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 243277001435 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 243277001436 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 243277001437 Endonuclease I; Region: Endonuclease_1; cl01003 243277001438 DNA-specific endonuclease I; Provisional; Region: PRK15137 243277001439 SprT homologues; Region: SprT; cl01182 243277001440 SprT-like family; Region: SprT-like; pfam10263 243277001441 S-adenosylmethionine synthetase; Validated; Region: PRK05250 243277001442 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 243277001443 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 243277001444 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 243277001445 transketolase; Reviewed; Region: PRK12753 243277001446 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 243277001447 TPP-binding site [chemical binding]; other site 243277001448 dimer interface [polypeptide binding]; other site 243277001449 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 243277001450 PYR/PP interface [polypeptide binding]; other site 243277001451 dimer interface [polypeptide binding]; other site 243277001452 TPP binding site [chemical binding]; other site 243277001453 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 243277001454 Transcriptional regulator [Transcription]; Region: LysR; COG0583 243277001455 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277001456 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 243277001457 dimerization interface [polypeptide binding]; other site 243277001458 enterobactin receptor protein; Provisional; Region: PRK13483 243277001459 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 243277001460 N-terminal plug; other site 243277001461 ligand-binding site [chemical binding]; other site 243277001462 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 243277001463 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 243277001464 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 243277001465 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 243277001466 substrate binding site [chemical binding]; other site 243277001467 hinge regions; other site 243277001468 ADP binding site [chemical binding]; other site 243277001469 catalytic site [active] 243277001470 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 243277001471 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 243277001472 active site 243277001473 intersubunit interface [polypeptide binding]; other site 243277001474 zinc binding site [ion binding]; other site 243277001475 Na+ binding site [ion binding]; other site 243277001476 mechanosensitive channel MscS; Provisional; Region: PRK10334 243277001477 Conserved TM helix; Region: TM_helix; pfam05552 243277001478 Mechanosensitive ion channel; Region: MS_channel; pfam00924 243277001479 LysE type translocator; Region: LysE; cl00565 243277001480 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 243277001481 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277001482 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 243277001483 putative dimerization interface [polypeptide binding]; other site 243277001484 Protein of unknown function (DUF541); Region: SIMPL; cl01077 243277001485 pyruvate kinase; Provisional; Region: PRK09206 243277001486 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; cd00288 243277001487 domain interfaces; other site 243277001488 active site 243277001489 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 243277001490 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277001491 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 243277001492 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 243277001493 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 243277001494 glutaminase active site [active] 243277001495 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 243277001496 dimer interface [polypeptide binding]; other site 243277001497 active site 243277001498 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 243277001499 dimer interface [polypeptide binding]; other site 243277001500 active site 243277001501 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 243277001502 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 243277001503 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 243277001504 putative acyl-acceptor binding pocket; other site 243277001505 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277001506 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 243277001507 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277001508 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 243277001509 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 243277001510 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 243277001511 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 243277001512 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 243277001513 RNA/DNA hybrid binding site [nucleotide binding]; other site 243277001514 active site 243277001515 putative peptidase; Provisional; Region: PRK11649 243277001516 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 243277001517 Protein of unknown function (DUF2787); Region: DUF2787; pfam10980 243277001518 Protein of unknown function (DUF2787); Region: DUF2787; pfam10980 243277001519 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 243277001520 MPN+ (JAMM) motif; other site 243277001521 Zinc-binding site [ion binding]; other site 243277001522 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 243277001523 PAS fold; Region: PAS_3; pfam08447 243277001524 putative active site [active] 243277001525 heme pocket [chemical binding]; other site 243277001526 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277001527 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277001528 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 243277001529 Vibrio chemotaxis protein N terminus; Region: MCP_N; pfam05581 243277001530 Cache domain; Region: Cache_1; pfam02743 243277001531 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 243277001532 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277001533 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277001534 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 243277001535 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; cl00290 243277001536 integrase; Provisional; Region: PRK09692 243277001537 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 243277001538 active site 243277001539 Int/Topo IB signature motif; other site 243277001540 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 243277001541 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 243277001542 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 243277001543 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 243277001544 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 243277001545 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 243277001546 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 243277001547 DNA binding residues [nucleotide binding] 243277001548 DNA primase; Validated; Region: dnaG; PRK05667 243277001549 CHC2 zinc finger; Region: zf-CHC2; cl15369 243277001550 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 243277001551 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 243277001552 active site 243277001553 metal binding site [ion binding]; metal-binding site 243277001554 interdomain interaction site; other site 243277001555 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 243277001556 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 243277001557 GatB domain; Region: GatB_Yqey; cl11497 243277001558 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 243277001559 UGMP family protein; Validated; Region: PRK09604 243277001560 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 243277001561 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 243277001562 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 243277001563 Domain of unknown function (DUF205); Region: DUF205; cl00410 243277001564 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 243277001565 homooctamer interface [polypeptide binding]; other site 243277001566 active site 243277001567 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 243277001568 catalytic center binding site [active] 243277001569 ATP binding site [chemical binding]; other site 243277001570 Bacitracin resistance protein BacA; Region: BacA; cl00858 243277001571 Septum formation initiator; Region: DivIC; cl11433 243277001572 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 243277001573 substrate binding site; other site 243277001574 dimer interface; other site 243277001575 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 243277001576 homotrimer interaction site [polypeptide binding]; other site 243277001577 zinc binding site [ion binding]; other site 243277001578 CDP-binding sites; other site 243277001579 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 243277001580 PseudoU_synth_EcTruD: Pseudouridine synthase, TruD family. This group consists of bacterial pseudouridine synthases similar to Escherichia coli TruD. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_EcTruD; cd02575 243277001581 Permutation of conserved domain; other site 243277001582 active site 243277001583 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 243277001584 Survival protein SurE; Region: SurE; cl00448 243277001585 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; cl12011 243277001586 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 243277001587 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 243277001588 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 243277001589 putative peptidoglycan binding site; other site 243277001590 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 243277001591 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 243277001592 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 243277001593 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 243277001594 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 243277001595 DNA binding residues [nucleotide binding] 243277001596 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 243277001597 MutS domain I; Region: MutS_I; pfam01624 243277001598 MutS domain II; Region: MutS_II; pfam05188 243277001599 MutS family domain IV; Region: MutS_IV; pfam05190 243277001600 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 243277001601 Walker A/P-loop; other site 243277001602 ATP binding site [chemical binding]; other site 243277001603 Q-loop/lid; other site 243277001604 ABC transporter signature motif; other site 243277001605 Walker B; other site 243277001606 D-loop; other site 243277001607 H-loop/switch region; other site 243277001608 cysteine synthase B; Region: cysM; TIGR01138 243277001609 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 243277001610 dimer interface [polypeptide binding]; other site 243277001611 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243277001612 catalytic residue [active] 243277001613 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 243277001614 sulfate ABC transporter, permease protein CysT; Region: permease_CysT; TIGR02139 243277001615 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277001616 dimer interface [polypeptide binding]; other site 243277001617 conserved gate region; other site 243277001618 putative PBP binding loops; other site 243277001619 ABC-ATPase subunit interface; other site 243277001620 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277001621 dimer interface [polypeptide binding]; other site 243277001622 conserved gate region; other site 243277001623 putative PBP binding loops; other site 243277001624 ABC-ATPase subunit interface; other site 243277001625 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 243277001626 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 243277001627 Walker A/P-loop; other site 243277001628 ATP binding site [chemical binding]; other site 243277001629 Q-loop/lid; other site 243277001630 ABC transporter signature motif; other site 243277001631 Walker B; other site 243277001632 D-loop; other site 243277001633 H-loop/switch region; other site 243277001634 TOBE domain; Region: TOBE_2; cl01440 243277001635 Competence-damaged protein; Region: CinA; cl00666 243277001636 recombinase A; Provisional; Region: recA; PRK09354 243277001637 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 243277001638 hexamer interface [polypeptide binding]; other site 243277001639 Walker A motif; other site 243277001640 ATP binding site [chemical binding]; other site 243277001641 Walker B motif; other site 243277001642 RecX family; Region: RecX; cl00936 243277001643 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 243277001644 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 243277001645 motif 1; other site 243277001646 active site 243277001647 motif 2; other site 243277001648 motif 3; other site 243277001649 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 243277001650 DHHA1 domain; Region: DHHA1; pfam02272 243277001651 aspartate kinase; Validated; Region: PRK08841 243277001652 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 243277001653 putative nucleotide binding site [chemical binding]; other site 243277001654 putative catalytic residues [active] 243277001655 putative Mg ion binding site [ion binding]; other site 243277001656 putative aspartate binding site [chemical binding]; other site 243277001657 Global regulator protein family; Region: CsrA; cl00670 243277001658 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; cl01458 243277001659 oxaloacetate decarboxylase; Provisional; Region: PRK14040 243277001660 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 243277001661 active site 243277001662 catalytic residues [active] 243277001663 metal binding site [ion binding]; metal-binding site 243277001664 homodimer binding site [polypeptide binding]; other site 243277001665 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 243277001666 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 243277001667 carboxyltransferase (CT) interaction site; other site 243277001668 biotinylation site [posttranslational modification]; other site 243277001669 subunit; Region: OAD_beta; cl00816 243277001670 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 243277001671 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 243277001672 putative NAD(P) binding site [chemical binding]; other site 243277001673 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 243277001674 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 243277001675 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 243277001676 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 243277001677 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 243277001678 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 243277001679 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 243277001680 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl01099 243277001681 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 243277001682 hypothetical protein; Provisional; Region: PRK11573 243277001683 Domain of unknown function DUF21; Region: DUF21; pfam01595 243277001684 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 243277001685 Transporter associated domain; Region: CorC_HlyC; cl08393 243277001686 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 243277001687 signal recognition particle protein; Provisional; Region: PRK10867 243277001688 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 243277001689 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 243277001690 P loop; other site 243277001691 GTP binding site [chemical binding]; other site 243277001692 Signal peptide binding domain; Region: SRP_SPB; pfam02978 243277001693 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 243277001694 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 243277001695 RimM N-terminal domain; Region: RimM; pfam01782 243277001696 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 243277001697 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 243277001698 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 243277001699 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 243277001700 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 243277001701 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 243277001702 protein binding site [polypeptide binding]; other site 243277001703 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 243277001704 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 243277001705 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 243277001706 protein binding site [polypeptide binding]; other site 243277001707 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 243277001708 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 243277001709 AFG1-like ATPase; Region: AFG1_ATPase; pfam03969 243277001710 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 243277001711 23S rRNA interface [nucleotide binding]; other site 243277001712 L3 interface [polypeptide binding]; other site 243277001713 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 243277001714 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 243277001715 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 243277001716 [2Fe-2S] cluster binding site [ion binding]; other site 243277001717 cytochrome b; Provisional; Region: CYTB; MTH00145 243277001718 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 243277001719 Qi binding site; other site 243277001720 intrachain domain interface; other site 243277001721 interchain domain interface [polypeptide binding]; other site 243277001722 heme bH binding site [chemical binding]; other site 243277001723 heme bL binding site [chemical binding]; other site 243277001724 Qo binding site; other site 243277001725 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 243277001726 interchain domain interface [polypeptide binding]; other site 243277001727 intrachain domain interface; other site 243277001728 Qi binding site; other site 243277001729 Qo binding site; other site 243277001730 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 243277001731 stringent starvation protein A; Provisional; Region: sspA; PRK09481 243277001732 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 243277001733 C-terminal domain interface [polypeptide binding]; other site 243277001734 putative GSH binding site (G-site) [chemical binding]; other site 243277001735 dimer interface [polypeptide binding]; other site 243277001736 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 243277001737 dimer interface [polypeptide binding]; other site 243277001738 N-terminal domain interface [polypeptide binding]; other site 243277001739 Stringent starvation protein B; Region: SspB; cl01120 243277001740 BON domain; Region: BON; cl02771 243277001741 BON domain; Region: BON; cl02771 243277001742 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 243277001743 dimer interface [polypeptide binding]; other site 243277001744 active site 243277001745 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 243277001746 LppC putative lipoprotein; Region: LppC; pfam04348 243277001747 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 243277001748 putative ligand binding site [chemical binding]; other site 243277001749 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 243277001750 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 243277001751 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 243277001752 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 243277001753 active site clefts [active] 243277001754 zinc binding site [ion binding]; other site 243277001755 dimer interface [polypeptide binding]; other site 243277001756 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 243277001757 Permease family; Region: Xan_ur_permease; cl00967 243277001758 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 243277001759 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 243277001760 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277001761 Walker A/P-loop; other site 243277001762 ATP binding site [chemical binding]; other site 243277001763 Q-loop/lid; other site 243277001764 ABC transporter signature motif; other site 243277001765 Walker B; other site 243277001766 D-loop; other site 243277001767 H-loop/switch region; other site 243277001768 ABC-2 type transporter; Region: ABC2_membrane; cl11417 243277001769 pantoate--beta-alanine ligase; Reviewed; Region: panC; PRK00380 243277001770 Pantoate-beta-alanine ligase; Region: PanC; cd00560 243277001771 active site 243277001772 ATP-binding site [chemical binding]; other site 243277001773 pantoate-binding site; other site 243277001774 HXXH motif; other site 243277001775 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 243277001776 oligomerization interface [polypeptide binding]; other site 243277001777 active site 243277001778 metal binding site [ion binding]; metal-binding site 243277001779 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 243277001780 catalytic center binding site [active] 243277001781 ATP binding site [chemical binding]; other site 243277001782 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 243277001783 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 243277001784 active site 243277001785 NTP binding site [chemical binding]; other site 243277001786 metal binding triad [ion binding]; metal-binding site 243277001787 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 243277001788 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 243277001789 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 243277001790 active site 243277001791 nucleotide binding site [chemical binding]; other site 243277001792 HIGH motif; other site 243277001793 KMSKS motif; other site 243277001794 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 243277001795 Sugar fermentation stimulation protein; Region: SfsA; cl00647 243277001796 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 243277001797 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 243277001798 ATP binding site [chemical binding]; other site 243277001799 putative Mg++ binding site [ion binding]; other site 243277001800 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 243277001801 nucleotide binding region [chemical binding]; other site 243277001802 ATP-binding site [chemical binding]; other site 243277001803 Helicase associated domain (HA2); Region: HA2; cl04503 243277001804 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 243277001805 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 243277001806 Transglycosylase; Region: Transgly; cl07896 243277001807 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 243277001808 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 243277001809 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 243277001810 active site 243277001811 nucleophile elbow; other site 243277001812 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 243277001813 Surface antigen; Region: Bac_surface_Ag; cl03097 243277001814 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 243277001815 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 243277001816 substrate binding site [chemical binding]; other site 243277001817 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 243277001818 substrate binding site [chemical binding]; other site 243277001819 ligand binding site [chemical binding]; other site 243277001820 Uncharacterised protein family (UPF0231); Region: UPF0231; cl11474 243277001821 Nitrogen regulatory protein P-II; Region: P-II; cl00412 243277001822 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 243277001823 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 243277001824 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277001825 dimer interface [polypeptide binding]; other site 243277001826 conserved gate region; other site 243277001827 putative PBP binding loops; other site 243277001828 ABC-ATPase subunit interface; other site 243277001829 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277001830 dimer interface [polypeptide binding]; other site 243277001831 conserved gate region; other site 243277001832 putative PBP binding loops; other site 243277001833 ABC-ATPase subunit interface; other site 243277001834 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 243277001835 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 243277001836 Walker A/P-loop; other site 243277001837 ATP binding site [chemical binding]; other site 243277001838 Q-loop/lid; other site 243277001839 ABC transporter signature motif; other site 243277001840 Walker B; other site 243277001841 D-loop; other site 243277001842 H-loop/switch region; other site 243277001843 TOBE domain; Region: TOBE_2; cl01440 243277001844 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 243277001845 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 243277001846 active site 243277001847 substrate binding site [chemical binding]; other site 243277001848 metal binding site [ion binding]; metal-binding site 243277001849 Putative carbohydrate binding domain; Region: CBM_X; cl05621 243277001850 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 243277001851 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 243277001852 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 243277001853 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 243277001854 active site 243277001855 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 243277001856 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 243277001857 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 243277001858 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 243277001859 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 243277001860 Walker A/P-loop; other site 243277001861 ATP binding site [chemical binding]; other site 243277001862 Q-loop/lid; other site 243277001863 ABC transporter signature motif; other site 243277001864 Walker B; other site 243277001865 D-loop; other site 243277001866 H-loop/switch region; other site 243277001867 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 243277001868 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 243277001869 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 243277001870 Walker A/P-loop; other site 243277001871 ATP binding site [chemical binding]; other site 243277001872 Q-loop/lid; other site 243277001873 ABC transporter signature motif; other site 243277001874 Walker B; other site 243277001875 D-loop; other site 243277001876 H-loop/switch region; other site 243277001877 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 243277001878 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277001879 dimer interface [polypeptide binding]; other site 243277001880 conserved gate region; other site 243277001881 putative PBP binding loops; other site 243277001882 ABC-ATPase subunit interface; other site 243277001883 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 243277001884 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277001885 dimer interface [polypeptide binding]; other site 243277001886 conserved gate region; other site 243277001887 putative PBP binding loops; other site 243277001888 ABC-ATPase subunit interface; other site 243277001889 The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold; Region: PBP2_TmCBP_oligosaccharides_like; cd08509 243277001890 substrate binding site [chemical binding]; other site 243277001891 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 243277001892 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 243277001893 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 243277001894 dimerization interface [polypeptide binding]; other site 243277001895 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 243277001896 dimer interface [polypeptide binding]; other site 243277001897 phosphorylation site [posttranslational modification] 243277001898 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277001899 ATP binding site [chemical binding]; other site 243277001900 Mg2+ binding site [ion binding]; other site 243277001901 G-X-G motif; other site 243277001902 Response regulator receiver domain; Region: Response_reg; pfam00072 243277001903 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277001904 active site 243277001905 phosphorylation site [posttranslational modification] 243277001906 intermolecular recognition site; other site 243277001907 dimerization interface [polypeptide binding]; other site 243277001908 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 243277001909 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 243277001910 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 243277001911 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 243277001912 S-adenosylmethionine binding site [chemical binding]; other site 243277001913 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 243277001914 Domain of unknown function DUF20; Region: UPF0118; cl00465 243277001915 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 243277001916 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 243277001917 inhibitor-cofactor binding pocket; inhibition site 243277001918 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243277001919 catalytic residue [active] 243277001920 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 243277001921 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 243277001922 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 243277001923 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 243277001924 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 243277001925 putative peptidase; Provisional; Region: PRK11649 243277001926 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 243277001927 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 243277001928 active site 243277001929 HIGH motif; other site 243277001930 dimer interface [polypeptide binding]; other site 243277001931 KMSKS motif; other site 243277001932 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 243277001933 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl15297 243277001934 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 243277001935 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 243277001936 trimer interface [polypeptide binding]; other site 243277001937 eyelet of channel; other site 243277001938 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 243277001939 domain; Region: GreA_GreB_N; pfam03449 243277001940 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 243277001941 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 243277001942 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 243277001943 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 243277001944 S-adenosylmethionine binding site [chemical binding]; other site 243277001945 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 243277001946 FtsH Extracellular; Region: FtsH_ext; pfam06480 243277001947 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 243277001948 Walker A motif; other site 243277001949 ATP binding site [chemical binding]; other site 243277001950 Walker B motif; other site 243277001951 arginine finger; other site 243277001952 Peptidase family M41; Region: Peptidase_M41; pfam01434 243277001953 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 243277001954 dihydropteroate synthase; Region: DHPS; TIGR01496 243277001955 substrate binding pocket [chemical binding]; other site 243277001956 dimer interface [polypeptide binding]; other site 243277001957 inhibitor binding site; inhibition site 243277001958 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 243277001959 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 243277001960 active site 243277001961 substrate binding site [chemical binding]; other site 243277001962 metal binding site [ion binding]; metal-binding site 243277001963 Preprotein translocase SecG subunit; Region: SecG; cl09123 243277001964 ribosome maturation protein RimP; Reviewed; Region: PRK00092 243277001965 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 243277001966 Sm1 motif; other site 243277001967 predicted subunit interaction site [polypeptide binding]; other site 243277001968 RNA binding pocket [nucleotide binding]; other site 243277001969 Sm2 motif; other site 243277001970 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 243277001971 NusA N-terminal domain; Region: NusA_N; pfam08529 243277001972 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 243277001973 RNA binding site [nucleotide binding]; other site 243277001974 homodimer interface [polypeptide binding]; other site 243277001975 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 243277001976 G-X-X-G motif; other site 243277001977 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 243277001978 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 243277001979 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 243277001980 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 243277001981 translation initiation factor IF-2; Region: IF-2; TIGR00487 243277001982 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 243277001983 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases; Region: IF2_eIF5B; cd01887 243277001984 G1 box; other site 243277001985 putative GEF interaction site [polypeptide binding]; other site 243277001986 GTP/Mg2+ binding site [chemical binding]; other site 243277001987 Switch I region; other site 243277001988 G2 box; other site 243277001989 G3 box; other site 243277001990 Switch II region; other site 243277001991 G4 box; other site 243277001992 G5 box; other site 243277001993 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 243277001994 Translation-initiation factor 2; Region: IF-2; pfam11987 243277001995 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 243277001996 Ribosome-binding factor A; Region: RBFA; cl00542 243277001997 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 243277001998 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 243277001999 RNA binding site [nucleotide binding]; other site 243277002000 active site 243277002001 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 243277002002 16S/18S rRNA binding site [nucleotide binding]; other site 243277002003 S13e-L30e interaction site [polypeptide binding]; other site 243277002004 25S rRNA binding site [nucleotide binding]; other site 243277002005 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 243277002006 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 243277002007 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 243277002008 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 243277002009 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 243277002010 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 243277002011 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 243277002012 putative nucleic acid binding region [nucleotide binding]; other site 243277002013 G-X-X-G motif; other site 243277002014 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 243277002015 RNA binding site [nucleotide binding]; other site 243277002016 domain interface; other site 243277002017 lipoprotein NlpI; Provisional; Region: PRK11189 243277002018 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 243277002019 binding surface 243277002020 TPR motif; other site 243277002021 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277002022 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 243277002023 MatE; Region: MatE; cl10513 243277002024 MatE; Region: MatE; cl10513 243277002025 Peptidase family U32; Region: Peptidase_U32; cl03113 243277002026 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 243277002027 Peptidase family U32; Region: Peptidase_U32; cl03113 243277002028 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 243277002029 PAS domain S-box; Region: sensory_box; TIGR00229 243277002030 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277002031 metal binding site [ion binding]; metal-binding site 243277002032 active site 243277002033 I-site; other site 243277002034 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 243277002035 SCP-2 sterol transfer family; Region: SCP2; cl01225 243277002036 putative acetyltransferase; Provisional; Region: PRK03624 243277002037 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 243277002038 Coenzyme A binding pocket [chemical binding]; other site 243277002039 DNA polymerase III psi subunit; Region: DNA_III_psi; cl11436 243277002040 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 243277002041 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277002042 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277002043 metal binding site [ion binding]; metal-binding site 243277002044 active site 243277002045 I-site; other site 243277002046 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 243277002047 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 243277002048 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 243277002049 G1 box; other site 243277002050 putative GEF interaction site [polypeptide binding]; other site 243277002051 GTP/Mg2+ binding site [chemical binding]; other site 243277002052 Switch I region; other site 243277002053 G2 box; other site 243277002054 G3 box; other site 243277002055 Switch II region; other site 243277002056 G4 box; other site 243277002057 G5 box; other site 243277002058 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 243277002059 helicase 45; Provisional; Region: PTZ00424 243277002060 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 243277002061 ATP binding site [chemical binding]; other site 243277002062 Mg++ binding site [ion binding]; other site 243277002063 motif III; other site 243277002064 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 243277002065 nucleotide binding region [chemical binding]; other site 243277002066 ATP-binding site [chemical binding]; other site 243277002067 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 243277002068 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 243277002069 S-adenosylmethionine binding site [chemical binding]; other site 243277002070 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 243277002071 peptide chain release factor 2; Validated; Region: prfB; PRK00578 243277002072 RF-1 domain; Region: RF-1; cl02875 243277002073 RF-1 domain; Region: RF-1; cl02875 243277002074 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 243277002075 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 243277002076 dimer interface [polypeptide binding]; other site 243277002077 putative anticodon binding site; other site 243277002078 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 243277002079 motif 1; other site 243277002080 active site 243277002081 motif 2; other site 243277002082 motif 3; other site 243277002083 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 243277002084 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 243277002085 Walker A motif; other site 243277002086 ATP binding site [chemical binding]; other site 243277002087 Walker B motif; other site 243277002088 arginine finger; other site 243277002089 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277002090 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 243277002091 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 243277002092 active site 243277002093 catalytic tetrad [active] 243277002094 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 243277002095 putative DNA-binding cleft [nucleotide binding]; other site 243277002096 putative DNA clevage site; other site 243277002097 molecular lever; other site 243277002098 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 243277002099 putative active site [active] 243277002100 Ap4A binding site [chemical binding]; other site 243277002101 nudix motif; other site 243277002102 putative metal binding site [ion binding]; other site 243277002103 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 243277002104 GAF domain; Region: GAF; cl00853 243277002105 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 243277002106 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 243277002107 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 243277002108 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 243277002109 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 243277002110 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 243277002111 dimerization interface [polypeptide binding]; other site 243277002112 active site 243277002113 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 243277002114 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 243277002115 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 243277002116 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277002117 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 243277002118 putative dimerization interface [polypeptide binding]; other site 243277002119 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 243277002120 dimerization interface [polypeptide binding]; other site 243277002121 putative DNA binding site [nucleotide binding]; other site 243277002122 putative Zn2+ binding site [ion binding]; other site 243277002123 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 243277002124 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 243277002125 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 243277002126 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 243277002127 active site 243277002128 Riboflavin kinase; Region: Flavokinase; cl03312 243277002129 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 243277002130 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 243277002131 active site 243277002132 HIGH motif; other site 243277002133 nucleotide binding site [chemical binding]; other site 243277002134 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 243277002135 active site 243277002136 KMSKS motif; other site 243277002137 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 243277002138 tRNA binding surface [nucleotide binding]; other site 243277002139 anticodon binding site; other site 243277002140 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 243277002141 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 243277002142 lipoprotein signal peptidase; Provisional; Region: PRK14787 243277002143 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 243277002144 LytB protein; Region: LYTB; cl00507 243277002145 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 243277002146 Carbon starvation protein CstA; Region: CstA; cl00856 243277002147 lipoprotein; Provisional; Region: PRK11443 243277002148 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 243277002149 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 243277002150 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277002151 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: PRK12570 243277002152 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 243277002153 putative active site [active] 243277002154 Uncharacterised protein family (UPF0075); Region: UPF0075; cl04217 243277002155 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 243277002156 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 243277002157 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277002158 active site 243277002159 phosphorylation site [posttranslational modification] 243277002160 intermolecular recognition site; other site 243277002161 dimerization interface [polypeptide binding]; other site 243277002162 LytTr DNA-binding domain; Region: LytTR; cl04498 243277002163 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 243277002164 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 243277002165 GAF domain; Region: GAF; cl00853 243277002166 Histidine kinase; Region: His_kinase; pfam06580 243277002167 NeuB family; Region: NeuB; cl00496 243277002168 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 243277002169 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 243277002170 Chorismate mutase type II; Region: CM_2; cl00693 243277002171 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277002172 PilZ domain; Region: PilZ; cl01260 243277002173 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 243277002174 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 243277002175 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277002176 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 243277002177 ABC transporter; Region: ABC_tran_2; pfam12848 243277002178 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 243277002179 lytic murein transglycosylase; Provisional; Region: PRK11619 243277002180 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 243277002181 N-acetyl-D-glucosamine binding site [chemical binding]; other site 243277002182 catalytic residue [active] 243277002183 Trp repressor protein; Region: Trp_repressor; cl01121 243277002184 Protein of unknown function DUF84; Region: NTPase_I-T; cl00866 243277002185 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277002186 metal binding site [ion binding]; metal-binding site 243277002187 active site 243277002188 I-site; other site 243277002189 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 243277002190 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 243277002191 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 243277002192 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 243277002193 Chorismate mutase type II; Region: CM_2; cl00693 243277002194 Prephenate dehydratase; Region: PDT; pfam00800 243277002195 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 243277002196 putative L-Phe binding site [chemical binding]; other site 243277002197 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 243277002198 30S subunit binding site; other site 243277002199 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 243277002200 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 243277002201 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 243277002202 RNA binding surface [nucleotide binding]; other site 243277002203 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 243277002204 active site 243277002205 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 243277002206 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 243277002207 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 243277002208 Clp amino terminal domain; Region: Clp_N; pfam02861 243277002209 Clp amino terminal domain; Region: Clp_N; pfam02861 243277002210 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 243277002211 Walker A motif; other site 243277002212 ATP binding site [chemical binding]; other site 243277002213 Walker B motif; other site 243277002214 arginine finger; other site 243277002215 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 243277002216 Walker A motif; other site 243277002217 ATP binding site [chemical binding]; other site 243277002218 Walker B motif; other site 243277002219 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 243277002220 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 243277002221 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 243277002222 dimer interface [polypeptide binding]; other site 243277002223 FMN binding site [chemical binding]; other site 243277002224 NADPH bind site [chemical binding]; other site 243277002225 ferredoxin; Validated; Region: PRK07118 243277002226 putative protease; Provisional; Region: PRK15452 243277002227 Peptidase family U32; Region: Peptidase_U32; cl03113 243277002228 Putative exonuclease, RdgC; Region: RdgC; cl01122 243277002229 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 243277002230 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277002231 active site 243277002232 phosphorylation site [posttranslational modification] 243277002233 intermolecular recognition site; other site 243277002234 dimerization interface [polypeptide binding]; other site 243277002235 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 243277002236 DNA binding site [nucleotide binding] 243277002237 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 243277002238 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 243277002239 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 243277002240 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 243277002241 dimer interface [polypeptide binding]; other site 243277002242 phosphorylation site [posttranslational modification] 243277002243 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277002244 ATP binding site [chemical binding]; other site 243277002245 Mg2+ binding site [ion binding]; other site 243277002246 G-X-G motif; other site 243277002247 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 243277002248 exopolyphosphatase; Provisional; Region: PRK10854 243277002249 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 243277002250 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 243277002251 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 243277002252 domain interface [polypeptide binding]; other site 243277002253 active site 243277002254 catalytic site [active] 243277002255 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 243277002256 domain interface [polypeptide binding]; other site 243277002257 active site 243277002258 catalytic site [active] 243277002259 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 243277002260 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277002261 ABC-ATPase subunit interface; other site 243277002262 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 243277002263 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277002264 dimer interface [polypeptide binding]; other site 243277002265 conserved gate region; other site 243277002266 putative PBP binding loops; other site 243277002267 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 243277002268 ABC-ATPase subunit interface; other site 243277002269 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 243277002270 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 243277002271 Walker A/P-loop; other site 243277002272 ATP binding site [chemical binding]; other site 243277002273 Q-loop/lid; other site 243277002274 ABC transporter signature motif; other site 243277002275 Walker B; other site 243277002276 D-loop; other site 243277002277 H-loop/switch region; other site 243277002278 transcriptional regulator PhoU; Provisional; Region: PRK11115 243277002279 PhoU domain; Region: PhoU; pfam01895 243277002280 PhoU domain; Region: PhoU; pfam01895 243277002281 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 243277002282 CutC family; Region: CutC; cl01218 243277002283 peroxidase; Provisional; Region: PRK15000 243277002284 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 243277002285 dimer interface [polypeptide binding]; other site 243277002286 decamer (pentamer of dimers) interface [polypeptide binding]; other site 243277002287 catalytic triad [active] 243277002288 peroxidatic and resolving cysteines [active] 243277002289 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 243277002290 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277002291 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 243277002292 dimerization interface [polypeptide binding]; other site 243277002293 malate synthase A; Region: malate_syn_A; TIGR01344 243277002294 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 243277002295 active site 243277002296 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 243277002297 tetramer interface [polypeptide binding]; other site 243277002298 active site 243277002299 Mg2+/Mn2+ binding site [ion binding]; other site 243277002300 FOG: CBS domain [General function prediction only]; Region: COG0517 243277002301 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 243277002302 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 243277002303 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 243277002304 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 243277002305 Preprotein translocase subunit; Region: YajC; cl00806 243277002306 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 243277002307 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 243277002308 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 243277002309 Protein export membrane protein; Region: SecD_SecF; cl14618 243277002310 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 243277002311 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 243277002312 Protein export membrane protein; Region: SecD_SecF; cl14618 243277002313 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 243277002314 active site 243277002315 dimerization interface [polypeptide binding]; other site 243277002316 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 243277002317 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 243277002318 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277002319 Rrf2 family protein; Region: rrf2_super; TIGR00738 243277002320 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 243277002321 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 243277002322 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 243277002323 catalytic residue [active] 243277002324 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 243277002325 trimerization site [polypeptide binding]; other site 243277002326 active site 243277002327 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 243277002328 co-chaperone HscB; Provisional; Region: hscB; PRK05014 243277002329 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 243277002330 HSP70 interaction site [polypeptide binding]; other site 243277002331 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 243277002332 chaperone protein HscA; Provisional; Region: hscA; PRK05183 243277002333 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 243277002334 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 243277002335 catalytic loop [active] 243277002336 iron binding site [ion binding]; other site 243277002337 Protein of unknown function (DUF528); Region: DUF528; cl01123 243277002338 aminopeptidase B; Provisional; Region: PRK05015 243277002339 Peptidase; Region: DUF3663; pfam12404 243277002340 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 243277002341 interface (dimer of trimers) [polypeptide binding]; other site 243277002342 Substrate-binding/catalytic site; other site 243277002343 Zn-binding sites [ion binding]; other site 243277002344 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 243277002345 active site 243277002346 multimer interface [polypeptide binding]; other site 243277002347 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 243277002348 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 243277002349 FeS/SAM binding site; other site 243277002350 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 243277002351 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277002352 cytoskeletal protein RodZ; Provisional; Region: PRK10856 243277002353 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 243277002354 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694; cl15446 243277002355 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 243277002356 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 243277002357 dimer interface [polypeptide binding]; other site 243277002358 motif 1; other site 243277002359 active site 243277002360 motif 2; other site 243277002361 motif 3; other site 243277002362 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 243277002363 anticodon binding site; other site 243277002364 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 243277002365 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 243277002366 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 243277002367 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 243277002368 Trp docking motif [polypeptide binding]; other site 243277002369 GTP-binding protein Der; Reviewed; Region: PRK00093 243277002370 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA1; cd01894 243277002371 G1 box; other site 243277002372 GTP/Mg2+ binding site [chemical binding]; other site 243277002373 Switch I region; other site 243277002374 G2 box; other site 243277002375 Switch II region; other site 243277002376 G3 box; other site 243277002377 G4 box; other site 243277002378 G5 box; other site 243277002379 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA2; cd01895 243277002380 G1 box; other site 243277002381 GTP/Mg2+ binding site [chemical binding]; other site 243277002382 Switch I region; other site 243277002383 G2 box; other site 243277002384 G3 box; other site 243277002385 Switch II region; other site 243277002386 G4 box; other site 243277002387 G5 box; other site 243277002388 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 243277002389 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 243277002390 Dam-replacing family; Region: DRP; pfam06044 243277002391 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 243277002392 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 243277002393 generic binding surface II; other site 243277002394 generic binding surface I; other site 243277002395 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 243277002396 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 243277002397 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 243277002398 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 243277002399 active site 243277002400 GMP synthase; Reviewed; Region: guaA; PRK00074 243277002401 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 243277002402 AMP/PPi binding site [chemical binding]; other site 243277002403 candidate oxyanion hole; other site 243277002404 catalytic triad [active] 243277002405 potential glutamine specificity residues [chemical binding]; other site 243277002406 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 243277002407 ATP Binding subdomain [chemical binding]; other site 243277002408 Ligand Binding sites [chemical binding]; other site 243277002409 Dimerization subdomain; other site 243277002410 Glycoside hydrolase family 19 chitinase domain. Chitinases are enzymes that catalyze the hydrolysis of the beta-1,4-N-acetyl-D-glucosamine linkages in chitin polymers. Family 19 chitinases are found primarily in plants (classes I, III, and IV), but some...; Region: chitinase_glyco_hydro_19; cd00325 243277002411 putative sugar binding site [chemical binding]; other site 243277002412 catalytic residues [active] 243277002413 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 243277002414 chitin/cellulose binding site [chemical binding]; other site 243277002415 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 243277002416 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 243277002417 hydrophobic substrate binding pocket; other site 243277002418 Isochorismatase family; Region: Isochorismatase; pfam00857 243277002419 active site 243277002420 conserved cis-peptide bond; other site 243277002421 Phosphopantetheine attachment site; Region: PP-binding; cl09936 243277002422 2,3-dihydroxybenzoate-AMP ligase; Region: DHB_AMP_lig; TIGR02275 243277002423 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 243277002424 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 243277002425 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 243277002426 chorismate binding enzyme; Region: Chorismate_bind; cl10555 243277002427 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 243277002428 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 243277002429 putative NAD(P) binding site [chemical binding]; other site 243277002430 active site 243277002431 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 243277002432 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 243277002433 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 243277002434 siderophore binding site; other site 243277002435 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 243277002436 ABC-ATPase subunit interface; other site 243277002437 dimer interface [polypeptide binding]; other site 243277002438 putative PBP binding regions; other site 243277002439 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 243277002440 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 243277002441 ABC-ATPase subunit interface; other site 243277002442 dimer interface [polypeptide binding]; other site 243277002443 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 243277002444 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 243277002445 Walker A/P-loop; other site 243277002446 ATP binding site [chemical binding]; other site 243277002447 Q-loop/lid; other site 243277002448 ABC transporter signature motif; other site 243277002449 Walker B; other site 243277002450 D-loop; other site 243277002451 H-loop/switch region; other site 243277002452 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 243277002453 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 243277002454 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 243277002455 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277002456 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 243277002457 putative substrate binding pocket [chemical binding]; other site 243277002458 putative dimerization interface [polypeptide binding]; other site 243277002459 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 243277002460 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 243277002461 SCP-2 sterol transfer family; Region: SCP2; cl01225 243277002462 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 243277002463 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 243277002464 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277002465 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 243277002466 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277002467 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 243277002468 dimerization interface [polypeptide binding]; other site 243277002469 substrate binding pocket [chemical binding]; other site 243277002470 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; cl01562 243277002471 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 243277002472 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277002473 active site 243277002474 phosphorylation site [posttranslational modification] 243277002475 intermolecular recognition site; other site 243277002476 dimerization interface [polypeptide binding]; other site 243277002477 Transcriptional regulator; Region: CitT; pfam12431 243277002478 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 243277002479 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 243277002480 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277002481 ATP binding site [chemical binding]; other site 243277002482 Mg2+ binding site [ion binding]; other site 243277002483 G-X-G motif; other site 243277002484 subunit; Region: OAD_beta; cl00816 243277002485 oxaloacetate decarboxylase; Provisional; Region: PRK14040 243277002486 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 243277002487 active site 243277002488 catalytic residues [active] 243277002489 metal binding site [ion binding]; metal-binding site 243277002490 homodimer binding site [polypeptide binding]; other site 243277002491 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 243277002492 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 243277002493 carboxyltransferase (CT) interaction site; other site 243277002494 biotinylation site [posttranslational modification]; other site 243277002495 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; cl01458 243277002496 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 243277002497 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 243277002498 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 243277002499 putative active site [active] 243277002500 (T/H)XGH motif; other site 243277002501 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 243277002502 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 243277002503 Citrate lyase, alpha subunit (CitF); Region: CitF; pfam04223 243277002504 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; cl01498 243277002505 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 243277002506 ACT domain; Region: ACT_3; cl01447 243277002507 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 243277002508 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 243277002509 Ferredoxin [Energy production and conversion]; Region: COG1146 243277002510 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 243277002511 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 243277002512 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277002513 Uncharacterized conserved protein [Function unknown]; Region: COG4715 243277002514 SWIM zinc finger; Region: SWIM; cl15408 243277002515 Nuclease-related domain; Region: NERD; pfam08378 243277002516 Predicted HKD family nuclease [DNA replication, recombination, and repair]; Region: COG3886 243277002517 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_b3; cd09205 243277002518 putative homodimer interface [polypeptide binding]; other site 243277002519 putative active site [active] 243277002520 catalytic site [active] 243277002521 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 243277002522 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 243277002523 ATP binding site [chemical binding]; other site 243277002524 putative Mg++ binding site [ion binding]; other site 243277002525 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 243277002526 nucleotide binding region [chemical binding]; other site 243277002527 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; cl12011 243277002528 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277002529 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 243277002530 HipA-like N-terminal domain; Region: HipA_N; pfam07805 243277002531 HipA-like C-terminal domain; Region: HipA_C; pfam07804 243277002532 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 243277002533 Integrase core domain; Region: rve; cl01316 243277002534 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II and Staphylococcus aureus AldA1 (SACOL0154)-like; Region: ALDH_ACDHII_AcoD-like; cd07559 243277002535 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 243277002536 NAD(P) binding site [chemical binding]; other site 243277002537 catalytic residues [active] 243277002538 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 243277002539 Peptidase M66; Region: Peptidase_M66; pfam10462 243277002540 ToxR activated gene A lipoprotein; Region: TagA; pfam12561 243277002541 ToxR activated gene A lipoprotein; Region: TagA; pfam12561 243277002542 Beta/Gamma crystallin; Region: Crystall; cl02528 243277002543 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 243277002544 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 243277002545 dimer interface [polypeptide binding]; other site 243277002546 catalytic triad [active] 243277002547 peroxidatic and resolving cysteines [active] 243277002548 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 243277002549 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277002550 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277002551 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277002552 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 243277002553 Toxin-coregulated pilus subunit TcpA; Region: TcpA; pfam05946 243277002554 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 243277002555 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 243277002556 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 243277002557 Type II/IV secretion system protein; Region: GSPII_E; pfam00437 243277002558 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277002559 Walker A motif; other site 243277002560 ATP binding site [chemical binding]; other site 243277002561 Walker B motif; other site 243277002562 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 243277002563 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 243277002564 Vibrio cholerae toxin co-regulated pilus biosynthesis protein F; Region: TcpF; pfam06340 243277002565 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 243277002566 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 243277002567 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 243277002568 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 243277002569 Cache domain; Region: Cache_1; pfam02743 243277002570 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 243277002571 dimerization interface [polypeptide binding]; other site 243277002572 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277002573 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277002574 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 243277002575 RDD family; Region: RDD; cl00746 243277002576 Peptidase family M23; Region: Peptidase_M23; pfam01551 243277002577 Surface antigen; Region: Surface_Ag_2; cl01155 243277002578 integrase; Provisional; Region: PRK09692 243277002579 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 243277002580 active site 243277002581 Int/Topo IB signature motif; other site 243277002582 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 243277002583 SmpB-tmRNA interface; other site 243277002584 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 243277002585 putative coenzyme Q binding site [chemical binding]; other site 243277002586 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl03735 243277002587 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 243277002588 recombination and repair protein; Provisional; Region: PRK10869 243277002589 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 243277002590 Walker A/P-loop; other site 243277002591 ATP binding site [chemical binding]; other site 243277002592 Q-loop/lid; other site 243277002593 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 243277002594 ABC transporter signature motif; other site 243277002595 Walker B; other site 243277002596 D-loop; other site 243277002597 H-loop/switch region; other site 243277002598 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 243277002599 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 243277002600 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 243277002601 dimer interface [polypeptide binding]; other site 243277002602 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 243277002603 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 243277002604 chaperone protein DnaJ; Provisional; Region: PRK10767 243277002605 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 243277002606 HSP70 interaction site [polypeptide binding]; other site 243277002607 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 243277002608 substrate binding site [polypeptide binding]; other site 243277002609 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 243277002610 Zn binding sites [ion binding]; other site 243277002611 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 243277002612 dimer interface [polypeptide binding]; other site 243277002613 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 243277002614 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 243277002615 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 243277002616 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 243277002617 Type II transport protein GspH; Region: GspH; pfam12019 243277002618 hypothetical protein; Provisional; Region: PRK10557 243277002619 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 243277002620 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 243277002621 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 243277002622 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 243277002623 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 243277002624 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 243277002625 nucleoside/Zn binding site; other site 243277002626 dimer interface [polypeptide binding]; other site 243277002627 catalytic motif [active] 243277002628 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 243277002629 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 243277002630 substrate binding pocket [chemical binding]; other site 243277002631 membrane-bound complex binding site; other site 243277002632 hinge residues; other site 243277002633 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 243277002634 N-acetyl-D-glucosamine binding site [chemical binding]; other site 243277002635 catalytic residue [active] 243277002636 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 243277002637 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 243277002638 dimerization interface [polypeptide binding]; other site 243277002639 ATP binding site [chemical binding]; other site 243277002640 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 243277002641 dimerization interface [polypeptide binding]; other site 243277002642 ATP binding site [chemical binding]; other site 243277002643 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 243277002644 putative active site [active] 243277002645 catalytic triad [active] 243277002646 Transposase IS200 like; Region: Y1_Tnp; cl00848 243277002647 Uncharacterised protein family (UPF0253); Region: UPF0253; cl11640 243277002648 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 243277002649 putative metal binding site [ion binding]; other site 243277002650 prolyl-tRNA synthetase; Provisional; Region: PRK09194 243277002651 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 243277002652 dimer interface [polypeptide binding]; other site 243277002653 motif 1; other site 243277002654 active site 243277002655 motif 2; other site 243277002656 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 243277002657 putative deacylase active site [active] 243277002658 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 243277002659 active site 243277002660 motif 3; other site 243277002661 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 243277002662 anticodon binding site; other site 243277002663 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 243277002664 homodimer interaction site [polypeptide binding]; other site 243277002665 cofactor binding site; other site 243277002666 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 243277002667 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 243277002668 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 243277002669 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 243277002670 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 243277002671 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277002672 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 243277002673 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 243277002674 Domain of unknown function, DUF446; Region: DUF446; cl01187 243277002675 tRNA pseudouridine isomerase C: Pseudouridine synthases catalyze the isomerization of specific uridines in an tRNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. TruC makes psi65 in tRNAs. This psi residue is not...; Region: PseudoU_synth_TruC; cd02563 243277002676 probable active site [active] 243277002677 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 243277002678 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 243277002679 TPP-binding site; other site 243277002680 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 243277002681 PYR/PP interface [polypeptide binding]; other site 243277002682 dimer interface [polypeptide binding]; other site 243277002683 TPP binding site [chemical binding]; other site 243277002684 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 243277002685 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 243277002686 substrate binding pocket [chemical binding]; other site 243277002687 chain length determination region; other site 243277002688 substrate-Mg2+ binding site; other site 243277002689 catalytic residues [active] 243277002690 aspartate-rich region 1; other site 243277002691 active site lid residues [active] 243277002692 aspartate-rich region 2; other site 243277002693 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 243277002694 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 243277002695 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 243277002696 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 243277002697 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 243277002698 ligand binding site [chemical binding]; other site 243277002699 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 243277002700 THUMP domain; Region: THUMP; cl12076 243277002701 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 243277002702 Ligand Binding Site [chemical binding]; other site 243277002703 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 243277002704 active site residue [active] 243277002705 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 243277002706 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277002707 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 243277002708 dimerization interface [polypeptide binding]; other site 243277002709 substrate binding pocket [chemical binding]; other site 243277002710 Protein of unknown function (DUF423); Region: DUF423; cl01008 243277002711 flap endonuclease-like protein; Provisional; Region: PRK09482 243277002712 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 243277002713 active site 243277002714 metal binding site 1 [ion binding]; metal-binding site 243277002715 putative 5' ssDNA interaction site; other site 243277002716 metal binding site 3; metal-binding site 243277002717 metal binding site 2 [ion binding]; metal-binding site 243277002718 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 243277002719 putative DNA binding site [nucleotide binding]; other site 243277002720 putative metal binding site [ion binding]; other site 243277002721 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 243277002722 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 243277002723 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277002724 metal binding site [ion binding]; metal-binding site 243277002725 active site 243277002726 I-site; other site 243277002727 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 243277002728 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 243277002729 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 243277002730 Syd protein; Region: Syd; cl06405 243277002731 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; cl02380 243277002732 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 243277002733 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277002734 dimer interface [polypeptide binding]; other site 243277002735 conserved gate region; other site 243277002736 ABC-ATPase subunit interface; other site 243277002737 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 243277002738 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 243277002739 Walker A/P-loop; other site 243277002740 ATP binding site [chemical binding]; other site 243277002741 Q-loop/lid; other site 243277002742 ABC transporter signature motif; other site 243277002743 Walker B; other site 243277002744 D-loop; other site 243277002745 H-loop/switch region; other site 243277002746 NIL domain; Region: NIL; cl09633 243277002747 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 243277002748 active site 243277002749 motif I; other site 243277002750 motif II; other site 243277002751 trehalose repressor; Provisional; Region: treR; PRK09492 243277002752 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 243277002753 DNA binding site [nucleotide binding] 243277002754 domain linker motif; other site 243277002755 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 243277002756 dimerization interface [polypeptide binding]; other site 243277002757 ligand binding site [chemical binding]; other site 243277002758 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 243277002759 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 243277002760 active site turn [active] 243277002761 phosphorylation site [posttranslational modification] 243277002762 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 243277002763 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 243277002764 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 243277002765 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 243277002766 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 243277002767 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 243277002768 Protein export membrane protein; Region: SecD_SecF; cl14618 243277002769 Low molecular weight phosphatase family; Region: LMWPc; cd00115 243277002770 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 243277002771 active site 243277002772 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 243277002773 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 243277002774 active site 243277002775 homodimer interface [polypeptide binding]; other site 243277002776 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 243277002777 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277002778 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 243277002779 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277002780 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 243277002781 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 243277002782 trimer interface [polypeptide binding]; other site 243277002783 active site 243277002784 substrate binding site [chemical binding]; other site 243277002785 CoA binding site [chemical binding]; other site 243277002786 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 243277002787 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 243277002788 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 243277002789 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 243277002790 trimer interface [polypeptide binding]; other site 243277002791 active site 243277002792 substrate binding site [chemical binding]; other site 243277002793 CoA binding site [chemical binding]; other site 243277002794 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 243277002795 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 243277002796 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 243277002797 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 243277002798 Jacalin-like lectin domain; Region: Jacalin_like; cl03205 243277002799 putative sugar binding site [chemical binding]; other site 243277002800 Jacalin-like lectin domain; Region: Jacalin_like; cl03205 243277002801 putative sugar binding site [chemical binding]; other site 243277002802 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 243277002803 O-Antigen ligase; Region: Wzy_C; cl04850 243277002804 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 243277002805 Bacterial sugar transferase; Region: Bac_transf; cl00939 243277002806 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 243277002807 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 243277002808 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 243277002809 SLBB domain; Region: SLBB; pfam10531 243277002810 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 243277002811 Chain length determinant protein; Region: Wzz; cl01623 243277002812 Chain length determinant protein; Region: Wzz; cl01623 243277002813 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 243277002814 VanZ like family; Region: VanZ; cl01971 243277002815 Uncharacterized conserved protein [Function unknown]; Region: COG1284 243277002816 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 243277002817 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 243277002818 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 243277002819 dimer interface [polypeptide binding]; other site 243277002820 glycine-pyridoxal phosphate binding site [chemical binding]; other site 243277002821 active site 243277002822 folate binding site [chemical binding]; other site 243277002823 lipoyl synthase; Provisional; Region: PRK05481 243277002824 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 243277002825 FeS/SAM binding site; other site 243277002826 Protein of unknown function (DUF493); Region: DUF493; cl01102 243277002827 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 243277002828 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 243277002829 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 243277002830 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 243277002831 rare lipoprotein A; Region: rlpA; TIGR00413 243277002832 Sporulation related domain; Region: SPOR; cl10051 243277002833 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 243277002834 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 243277002835 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 243277002836 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 243277002837 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 243277002838 Domain of unknown function DUF143; Region: DUF143; cl00519 243277002839 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 243277002840 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 243277002841 Lipopolysaccharide-assembly; Region: LptE; cl01125 243277002842 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 243277002843 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 243277002844 HIGH motif; other site 243277002845 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 243277002846 active site 243277002847 KMSKS motif; other site 243277002848 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 243277002849 tRNA binding surface [nucleotide binding]; other site 243277002850 hypothetical protein; Provisional; Region: PRK11032 243277002851 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 243277002852 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 243277002853 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 243277002854 putative active site [active] 243277002855 catalytic triad [active] 243277002856 putative dimer interface [polypeptide binding]; other site 243277002857 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 243277002858 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 243277002859 Transporter associated domain; Region: CorC_HlyC; cl08393 243277002860 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 243277002861 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 243277002862 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277002863 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 243277002864 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 243277002865 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 243277002866 FeS/SAM binding site; other site 243277002867 TRAM domain; Region: TRAM; cl01282 243277002868 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 243277002869 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277002870 PTS_IIA, PTS system, glucose/sucrose 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_glc; cd00210 243277002871 HPr interaction site; other site 243277002872 glycerol kinase (GK) interaction site [polypeptide binding]; other site 243277002873 active site 243277002874 phosphorylation site [posttranslational modification] 243277002875 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 243277002876 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 243277002877 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 243277002878 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 243277002879 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 243277002880 dimerization domain swap beta strand [polypeptide binding]; other site 243277002881 regulatory protein interface [polypeptide binding]; other site 243277002882 active site 243277002883 regulatory phosphorylation site [posttranslational modification]; other site 243277002884 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 243277002885 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 243277002886 dimer interface [polypeptide binding]; other site 243277002887 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243277002888 catalytic residue [active] 243277002889 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 243277002890 cell division protein ZipA; Provisional; Region: PRK04335 243277002891 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; cd00231 243277002892 FtsZ protein binding site [polypeptide binding]; other site 243277002893 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 243277002894 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 243277002895 nucleotide binding pocket [chemical binding]; other site 243277002896 K-X-D-G motif; other site 243277002897 catalytic site [active] 243277002898 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 243277002899 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 243277002900 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 243277002901 Dimer interface [polypeptide binding]; other site 243277002902 BRCT sequence motif; other site 243277002903 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 243277002904 trimer interface [polypeptide binding]; other site 243277002905 eyelet of channel; other site 243277002906 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 243277002907 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 243277002908 DNA binding residues [nucleotide binding] 243277002909 dimer interface [polypeptide binding]; other site 243277002910 copper binding site [ion binding]; other site 243277002911 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 243277002912 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 243277002913 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 243277002914 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 243277002915 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 243277002916 short chain dehydrogenase; Provisional; Region: PRK05693 243277002917 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 243277002918 NADP binding site [chemical binding]; other site 243277002919 active site 243277002920 steroid binding site; other site 243277002921 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 243277002922 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 243277002923 active site 243277002924 metal binding site [ion binding]; metal-binding site 243277002925 homotetramer interface [polypeptide binding]; other site 243277002926 Rdx family; Region: Rdx; cl01407 243277002927 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 243277002928 DNA binding site [nucleotide binding] 243277002929 heat shock protein 90; Provisional; Region: PRK05218 243277002930 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277002931 ATP binding site [chemical binding]; other site 243277002932 Mg2+ binding site [ion binding]; other site 243277002933 G-X-G motif; other site 243277002934 adenylate kinase; Reviewed; Region: adk; PRK00279 243277002935 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 243277002936 AMP-binding site [chemical binding]; other site 243277002937 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 243277002938 ferrochelatase; Reviewed; Region: hemH; PRK00035 243277002939 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 243277002940 C-terminal domain interface [polypeptide binding]; other site 243277002941 active site 243277002942 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 243277002943 active site 243277002944 N-terminal domain interface [polypeptide binding]; other site 243277002945 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 243277002946 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 243277002947 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 243277002948 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 243277002949 KOW motif; Region: KOW; cl00354 243277002950 asparagine synthetase B; Provisional; Region: asnB; PRK09431 243277002951 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 243277002952 active site 243277002953 dimer interface [polypeptide binding]; other site 243277002954 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 243277002955 Ligand Binding Site [chemical binding]; other site 243277002956 Molecular Tunnel; other site 243277002957 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 243277002958 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 243277002959 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277002960 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277002961 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 243277002962 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 243277002963 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 243277002964 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 243277002965 active site 243277002966 dimer interface [polypeptide binding]; other site 243277002967 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 243277002968 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 243277002969 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 243277002970 active site turn [active] 243277002971 phosphorylation site [posttranslational modification] 243277002972 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 243277002973 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 243277002974 active site 243277002975 HIGH motif; other site 243277002976 nucleotide binding site [chemical binding]; other site 243277002977 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 243277002978 KMSKS motif; other site 243277002979 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 243277002980 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 243277002981 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 243277002982 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 243277002983 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 243277002984 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 243277002985 dimerization interface 3.5A [polypeptide binding]; other site 243277002986 active site 243277002987 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 243277002988 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 243277002989 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 243277002990 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 243277002991 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 243277002992 Sporulation related domain; Region: SPOR; cl10051 243277002993 Colicin V production protein; Region: Colicin_V; cl00567 243277002994 amidophosphoribosyltransferase; Provisional; Region: PRK09246 243277002995 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 243277002996 active site 243277002997 tetramer interface [polypeptide binding]; other site 243277002998 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 243277002999 Predicted permease [General function prediction only]; Region: COG2056 243277003000 GntP family permease; Region: GntP_permease; cl15264 243277003001 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 243277003002 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 243277003003 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 243277003004 dimer interface [polypeptide binding]; other site 243277003005 putative active site [active] 243277003006 putative substrate binding site [chemical binding]; other site 243277003007 catalytic site [active] 243277003008 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 243277003009 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 243277003010 ligand binding site [chemical binding]; other site 243277003011 Protein of unknown function (DUF2753); Region: DUF2753; pfam10952 243277003012 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 243277003013 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 243277003014 dimer interface [polypeptide binding]; other site 243277003015 active site 243277003016 metal binding site [ion binding]; metal-binding site 243277003017 glutathione binding site [chemical binding]; other site 243277003018 endonuclease III; Provisional; Region: PRK10702 243277003019 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 243277003020 minor groove reading motif; other site 243277003021 helix-hairpin-helix signature motif; other site 243277003022 substrate binding pocket [chemical binding]; other site 243277003023 active site 243277003024 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 243277003025 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 243277003026 FMN-binding domain; Region: FMN_bind; cl01081 243277003027 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 243277003028 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 243277003029 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 243277003030 SLBB domain; Region: SLBB; pfam10531 243277003031 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 243277003032 electron transport complex protein RnfC; Provisional; Region: PRK05035 243277003033 electron transport complex protein RnfB; Provisional; Region: PRK05113 243277003034 Putative Fe-S cluster; Region: FeS; pfam04060 243277003035 4Fe-4S binding domain; Region: Fer4; cl02805 243277003036 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 243277003037 excinuclease ABC subunit B; Provisional; Region: PRK05298 243277003038 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 243277003039 ATP binding site [chemical binding]; other site 243277003040 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 243277003041 nucleotide binding region [chemical binding]; other site 243277003042 ATP-binding site [chemical binding]; other site 243277003043 Ultra-violet resistance protein B; Region: UvrB; pfam12344 243277003044 UvrB/uvrC motif; Region: UVR; pfam02151 243277003045 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 243277003046 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277003047 active site 243277003048 phosphorylation site [posttranslational modification] 243277003049 intermolecular recognition site; other site 243277003050 dimerization interface [polypeptide binding]; other site 243277003051 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 243277003052 Walker A motif; other site 243277003053 ATP binding site [chemical binding]; other site 243277003054 Walker B motif; other site 243277003055 arginine finger; other site 243277003056 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277003057 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 243277003058 Uncharacterised protein family UPF0052; Region: UPF0052; pfam01933 243277003059 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 243277003060 phosphate binding site [ion binding]; other site 243277003061 putative substrate binding pocket [chemical binding]; other site 243277003062 dimer interface [polypeptide binding]; other site 243277003063 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 243277003064 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 243277003065 FeS/SAM binding site; other site 243277003066 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 243277003067 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 243277003068 MPT binding site; other site 243277003069 trimer interface [polypeptide binding]; other site 243277003070 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 243277003071 trimer interface [polypeptide binding]; other site 243277003072 dimer interface [polypeptide binding]; other site 243277003073 putative active site [active] 243277003074 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 243277003075 MoaE interaction surface [polypeptide binding]; other site 243277003076 MoeB interaction surface [polypeptide binding]; other site 243277003077 thiocarboxylated glycine; other site 243277003078 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 243277003079 MoaE homodimer interface [polypeptide binding]; other site 243277003080 MoaD interaction [polypeptide binding]; other site 243277003081 active site residues [active] 243277003082 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277003083 metal binding site [ion binding]; metal-binding site 243277003084 active site 243277003085 I-site; other site 243277003086 FOG: CBS domain [General function prediction only]; Region: COG0517 243277003087 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_16; cd04629 243277003088 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 243277003089 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 243277003090 metal-binding site [ion binding] 243277003091 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 243277003092 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 243277003093 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 243277003094 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 243277003095 Domain of unknown function (DUF3377); Region: DUF3377; pfam11857 243277003096 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 243277003097 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 243277003098 active site 243277003099 HIGH motif; other site 243277003100 KMSKS motif; other site 243277003101 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 243277003102 tRNA binding surface [nucleotide binding]; other site 243277003103 anticodon binding site; other site 243277003104 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 243277003105 dimer interface [polypeptide binding]; other site 243277003106 putative tRNA-binding site [nucleotide binding]; other site 243277003107 antiporter inner membrane protein; Provisional; Region: PRK11670 243277003108 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 243277003109 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 243277003110 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 243277003111 ATP-binding site [chemical binding]; other site 243277003112 Sugar specificity; other site 243277003113 Pyrimidine base specificity; other site 243277003114 AsmA family; Region: AsmA; pfam05170 243277003115 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277003116 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 243277003117 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 243277003118 homodimer interface [polypeptide binding]; other site 243277003119 Walker A motif; other site 243277003120 ATP binding site [chemical binding]; other site 243277003121 hydroxycobalamin binding site [chemical binding]; other site 243277003122 Walker B motif; other site 243277003123 Low molecular weight phosphatase family; Region: LMWPc; cd00115 243277003124 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 243277003125 active site 243277003126 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 243277003127 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 243277003128 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 243277003129 RNA polymerase sigma factor; Provisional; Region: PRK12517 243277003130 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 243277003131 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 243277003132 DNA binding residues [nucleotide binding] 243277003133 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 243277003134 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 243277003135 dimer interface [polypeptide binding]; other site 243277003136 active site 243277003137 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 243277003138 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 243277003139 substrate binding site [chemical binding]; other site 243277003140 oxyanion hole (OAH) forming residues; other site 243277003141 trimer interface [polypeptide binding]; other site 243277003142 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; cl12011 243277003143 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 243277003144 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 243277003145 putative FMN binding site [chemical binding]; other site 243277003146 Transcriptional regulator [Transcription]; Region: LysR; COG0583 243277003147 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277003148 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 243277003149 putative effector binding pocket; other site 243277003150 dimerization interface [polypeptide binding]; other site 243277003151 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277003152 active site 243277003153 response regulator of RpoS; Provisional; Region: PRK10693 243277003154 phosphorylation site [posttranslational modification] 243277003155 intermolecular recognition site; other site 243277003156 dimerization interface [polypeptide binding]; other site 243277003157 Protein of unknown function (DUF454); Region: DUF454; cl01063 243277003158 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 243277003159 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 243277003160 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 243277003161 Walker A motif; other site 243277003162 ATP binding site [chemical binding]; other site 243277003163 Walker B motif; other site 243277003164 arginine finger; other site 243277003165 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 243277003166 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 243277003167 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 243277003168 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 243277003169 recombination protein RecR; Reviewed; Region: recR; PRK00076 243277003170 RecR protein; Region: RecR; pfam02132 243277003171 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 243277003172 putative active site [active] 243277003173 putative metal-binding site [ion binding]; other site 243277003174 tetramer interface [polypeptide binding]; other site 243277003175 Flagellin N-methylase; Region: FliB; cl00497 243277003176 Flagellin N-methylase; Region: FliB; cl00497 243277003177 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277003178 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 243277003179 NAD(P) binding site [chemical binding]; other site 243277003180 active site 243277003181 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 243277003182 putative inner membrane peptidase; Provisional; Region: PRK11778 243277003183 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 243277003184 tandem repeat interface [polypeptide binding]; other site 243277003185 oligomer interface [polypeptide binding]; other site 243277003186 active site residues [active] 243277003187 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 243277003188 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 243277003189 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 243277003190 catalytic residue [active] 243277003191 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 243277003192 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 243277003193 putative DNA binding site [nucleotide binding]; other site 243277003194 putative Zn2+ binding site [ion binding]; other site 243277003195 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277003196 acyl-CoA thioesterase II; Provisional; Region: PRK10526 243277003197 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 243277003198 active site 243277003199 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 243277003200 catalytic triad [active] 243277003201 dimer interface [polypeptide binding]; other site 243277003202 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 243277003203 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 243277003204 DNA binding site [nucleotide binding] 243277003205 active site 243277003206 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 243277003207 substrate binding pocket [chemical binding]; other site 243277003208 membrane-bound complex binding site; other site 243277003209 hinge residues; other site 243277003210 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 243277003211 substrate binding pocket [chemical binding]; other site 243277003212 membrane-bound complex binding site; other site 243277003213 hinge residues; other site 243277003214 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277003215 metal binding site [ion binding]; metal-binding site 243277003216 active site 243277003217 I-site; other site 243277003218 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 243277003219 dimerization interface [polypeptide binding]; other site 243277003220 putative DNA binding site [nucleotide binding]; other site 243277003221 putative Zn2+ binding site [ion binding]; other site 243277003222 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 243277003223 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 243277003224 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 243277003225 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 243277003226 active site 243277003227 catalytic residues [active] 243277003228 Major Facilitator Superfamily; Region: MFS_1; pfam07690 243277003229 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 243277003230 Cellulose binding domain; Region: CBM_2; cl02709 243277003231 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 243277003232 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 243277003233 active site 243277003234 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 243277003235 Chitinase C; Region: ChiC; pfam06483 243277003236 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cl00046 243277003237 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 243277003238 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 243277003239 substrate binding site [chemical binding]; other site 243277003240 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 243277003241 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 243277003242 SUA5 domain; Region: SUA5; pfam03481 243277003243 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 243277003244 putative binding surface; other site 243277003245 active site 243277003246 Response regulator receiver domain; Region: Response_reg; pfam00072 243277003247 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277003248 active site 243277003249 phosphorylation site [posttranslational modification] 243277003250 intermolecular recognition site; other site 243277003251 dimerization interface [polypeptide binding]; other site 243277003252 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 243277003253 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277003254 Response regulator receiver domain; Region: Response_reg; pfam00072 243277003255 active site 243277003256 phosphorylation site [posttranslational modification] 243277003257 intermolecular recognition site; other site 243277003258 dimerization interface [polypeptide binding]; other site 243277003259 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 243277003260 CheC-like family; Region: CheC; pfam04509 243277003261 sensory histidine kinase AtoS; Provisional; Region: PRK11360 243277003262 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 243277003263 dimer interface [polypeptide binding]; other site 243277003264 phosphorylation site [posttranslational modification] 243277003265 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277003266 ATP binding site [chemical binding]; other site 243277003267 Mg2+ binding site [ion binding]; other site 243277003268 G-X-G motif; other site 243277003269 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 243277003270 dimer interface [polypeptide binding]; other site 243277003271 phosphorylation site [posttranslational modification] 243277003272 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277003273 ATP binding site [chemical binding]; other site 243277003274 Mg2+ binding site [ion binding]; other site 243277003275 G-X-G motif; other site 243277003276 Response regulator receiver domain; Region: Response_reg; pfam00072 243277003277 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277003278 active site 243277003279 phosphorylation site [posttranslational modification] 243277003280 intermolecular recognition site; other site 243277003281 dimerization interface [polypeptide binding]; other site 243277003282 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 243277003283 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 243277003284 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277003285 active site 243277003286 phosphorylation site [posttranslational modification] 243277003287 intermolecular recognition site; other site 243277003288 dimerization interface [polypeptide binding]; other site 243277003289 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 243277003290 Zn2+ binding site [ion binding]; other site 243277003291 Mg2+ binding site [ion binding]; other site 243277003292 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 243277003293 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 243277003294 dimerization interface [polypeptide binding]; other site 243277003295 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277003296 ATP binding site [chemical binding]; other site 243277003297 Mg2+ binding site [ion binding]; other site 243277003298 G-X-G motif; other site 243277003299 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 243277003300 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 243277003301 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 243277003302 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 243277003303 peptide binding site [polypeptide binding]; other site 243277003304 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 243277003305 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277003306 dimer interface [polypeptide binding]; other site 243277003307 conserved gate region; other site 243277003308 putative PBP binding loops; other site 243277003309 ABC-ATPase subunit interface; other site 243277003310 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 243277003311 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 243277003312 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277003313 dimer interface [polypeptide binding]; other site 243277003314 conserved gate region; other site 243277003315 putative PBP binding loops; other site 243277003316 ABC-ATPase subunit interface; other site 243277003317 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 243277003318 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 243277003319 Walker A/P-loop; other site 243277003320 ATP binding site [chemical binding]; other site 243277003321 Q-loop/lid; other site 243277003322 ABC transporter signature motif; other site 243277003323 Walker B; other site 243277003324 D-loop; other site 243277003325 H-loop/switch region; other site 243277003326 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 243277003327 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 243277003328 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 243277003329 Walker A/P-loop; other site 243277003330 ATP binding site [chemical binding]; other site 243277003331 Q-loop/lid; other site 243277003332 ABC transporter signature motif; other site 243277003333 Walker B; other site 243277003334 D-loop; other site 243277003335 H-loop/switch region; other site 243277003336 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 243277003337 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 243277003338 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 243277003339 putative dimer interface [polypeptide binding]; other site 243277003340 N-terminal domain interface [polypeptide binding]; other site 243277003341 putative substrate binding pocket (H-site) [chemical binding]; other site 243277003342 phosphate acetyltransferase; Reviewed; Region: PRK05632 243277003343 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277003344 DRTGG domain; Region: DRTGG; cl12147 243277003345 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 243277003346 Acetokinase family; Region: Acetate_kinase; cl01029 243277003347 Protein of unknown function, DUF412; Region: DUF412; cl01183 243277003348 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 243277003349 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 243277003350 zinc binding site [ion binding]; other site 243277003351 putative ligand binding site [chemical binding]; other site 243277003352 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 243277003353 TM-ABC transporter signature motif; other site 243277003354 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 243277003355 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277003356 Walker A/P-loop; other site 243277003357 ATP binding site [chemical binding]; other site 243277003358 Q-loop/lid; other site 243277003359 ABC transporter signature motif; other site 243277003360 Walker B; other site 243277003361 D-loop; other site 243277003362 H-loop/switch region; other site 243277003363 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277003364 metal binding site [ion binding]; metal-binding site 243277003365 active site 243277003366 I-site; other site 243277003367 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 243277003368 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 243277003369 FMN binding site [chemical binding]; other site 243277003370 active site 243277003371 catalytic residues [active] 243277003372 substrate binding site [chemical binding]; other site 243277003373 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 243277003374 Uncharacterised protein family (UPF0149); Region: UPF0149; cl01173 243277003375 SEC-C motif; Region: SEC-C; pfam02810 243277003376 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 243277003377 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 243277003378 recombination factor protein RarA; Reviewed; Region: PRK13342 243277003379 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 243277003380 Walker A motif; other site 243277003381 ATP binding site [chemical binding]; other site 243277003382 Walker B motif; other site 243277003383 arginine finger; other site 243277003384 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 243277003385 seryl-tRNA synthetase; Provisional; Region: PRK05431 243277003386 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 243277003387 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 243277003388 dimer interface [polypeptide binding]; other site 243277003389 active site 243277003390 motif 1; other site 243277003391 motif 2; other site 243277003392 motif 3; other site 243277003393 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 243277003394 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 243277003395 inhibitor-cofactor binding pocket; inhibition site 243277003396 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243277003397 catalytic residue [active] 243277003398 biotin synthase; Provisional; Region: PRK15108 243277003399 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 243277003400 FeS/SAM binding site; other site 243277003401 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 243277003402 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 243277003403 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 243277003404 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 243277003405 catalytic residue [active] 243277003406 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 243277003407 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 243277003408 S-adenosylmethionine binding site [chemical binding]; other site 243277003409 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 243277003410 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277003411 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277003412 Peptidase family M48; Region: Peptidase_M48; cl12018 243277003413 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 243277003414 short chain dehydrogenase; Provisional; Region: PRK06101 243277003415 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277003416 NAD(P) binding site [chemical binding]; other site 243277003417 active site 243277003418 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 243277003419 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277003420 Uncharacterized conserved protein [Function unknown]; Region: COG3496 243277003421 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 243277003422 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 243277003423 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 243277003424 S-adenosylmethionine binding site [chemical binding]; other site 243277003425 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 243277003426 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 243277003427 adenylosuccinate lyase; Provisional; Region: PRK09285 243277003428 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 243277003429 tetramer interface [polypeptide binding]; other site 243277003430 active site 243277003431 Protein of unknown function (DUF489); Region: DUF489; cl01097 243277003432 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 243277003433 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 243277003434 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular adenosine...; Region: adenosine_kinase; cd01168 243277003435 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 243277003436 substrate binding site [chemical binding]; other site 243277003437 ATP binding site [chemical binding]; other site 243277003438 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 243277003439 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 243277003440 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 243277003441 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 243277003442 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 243277003443 ATP phosphoribosyltransferase; Region: HisG; cl15266 243277003444 HisG, C-terminal domain; Region: HisG_C; cl06867 243277003445 Histidinol dehydrogenase; Region: Histidinol_dh; pfam00815 243277003446 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 243277003447 NAD binding site [chemical binding]; other site 243277003448 dimerization interface [polypeptide binding]; other site 243277003449 product binding site; other site 243277003450 substrate binding site [chemical binding]; other site 243277003451 zinc binding site [ion binding]; other site 243277003452 catalytic residues [active] 243277003453 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 243277003454 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 243277003455 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243277003456 homodimer interface [polypeptide binding]; other site 243277003457 catalytic residue [active] 243277003458 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 243277003459 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 243277003460 active site 243277003461 motif I; other site 243277003462 motif II; other site 243277003463 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 243277003464 putative active site pocket [active] 243277003465 4-fold oligomerization interface [polypeptide binding]; other site 243277003466 metal binding residues [ion binding]; metal-binding site 243277003467 3-fold/trimer interface [polypeptide binding]; other site 243277003468 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 243277003469 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 243277003470 putative active site [active] 243277003471 oxyanion strand; other site 243277003472 catalytic triad [active] 243277003473 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 243277003474 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 243277003475 catalytic residues [active] 243277003476 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 243277003477 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 243277003478 substrate binding site [chemical binding]; other site 243277003479 glutamase interaction surface [polypeptide binding]; other site 243277003480 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 243277003481 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 243277003482 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 243277003483 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 243277003484 PseudoU_synth_RluE: Pseudouridine synthase, Escherichia coli RluE. This group is comprised of bacterial proteins similar to E. coli RluE. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines; Region: PseudoU_synth_RluE; cd02566 243277003485 probable active site [active] 243277003486 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 243277003487 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 243277003488 DNA-binding site [nucleotide binding]; DNA binding site 243277003489 RNA-binding motif; other site 243277003490 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 243277003491 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 243277003492 Clp amino terminal domain; Region: Clp_N; pfam02861 243277003493 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 243277003494 Walker A motif; other site 243277003495 ATP binding site [chemical binding]; other site 243277003496 Walker B motif; other site 243277003497 arginine finger; other site 243277003498 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 243277003499 Walker A motif; other site 243277003500 ATP binding site [chemical binding]; other site 243277003501 Walker B motif; other site 243277003502 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 243277003503 putative transporter; Provisional; Region: PRK04972 243277003504 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 243277003505 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 243277003506 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 243277003507 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 243277003508 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 243277003509 GSH binding site [chemical binding]; other site 243277003510 catalytic residues [active] 243277003511 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 243277003512 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH2; cd08183 243277003513 putative active site [active] 243277003514 metal binding site [ion binding]; metal-binding site 243277003515 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 243277003516 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 243277003517 putative active site [active] 243277003518 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 243277003519 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 243277003520 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 243277003521 catalytic residue [active] 243277003522 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 243277003523 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 243277003524 TfoX N-terminal domain; Region: TfoX_N; cl01167 243277003525 TfoX N-terminal domain; Region: TfoX_N; cl01167 243277003526 Response regulator receiver domain; Region: Response_reg; pfam00072 243277003527 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277003528 active site 243277003529 phosphorylation site [posttranslational modification] 243277003530 intermolecular recognition site; other site 243277003531 dimerization interface [polypeptide binding]; other site 243277003532 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 243277003533 ligand binding site [chemical binding]; other site 243277003534 flexible hinge region; other site 243277003535 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 243277003536 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 243277003537 dimer interface [polypeptide binding]; other site 243277003538 phosphorylation site [posttranslational modification] 243277003539 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277003540 ATP binding site [chemical binding]; other site 243277003541 Mg2+ binding site [ion binding]; other site 243277003542 G-X-G motif; other site 243277003543 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 243277003544 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 243277003545 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339; cl15420 243277003546 Aminotransferase class-V; Region: Aminotran_5; pfam00266 243277003547 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 243277003548 homodimer interface [polypeptide binding]; other site 243277003549 substrate-cofactor binding pocket; other site 243277003550 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243277003551 catalytic residue [active] 243277003552 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 243277003553 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 243277003554 Protein of unknown function (DUF785); Region: DUF785; cl01682 243277003555 tRNA mo(5)U34 methyltransferase; Provisional; Region: PRK15068 243277003556 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 243277003557 S-adenosylmethionine binding site [chemical binding]; other site 243277003558 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 243277003559 S-adenosylmethionine binding site [chemical binding]; other site 243277003560 Protein of unknown function DUF72; Region: DUF72; cl00777 243277003561 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 243277003562 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 243277003563 dimer interface [polypeptide binding]; other site 243277003564 anticodon binding site; other site 243277003565 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 243277003566 homodimer interface [polypeptide binding]; other site 243277003567 motif 1; other site 243277003568 active site 243277003569 motif 2; other site 243277003570 GAD domain; Region: GAD; pfam02938 243277003571 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 243277003572 active site 243277003573 motif 3; other site 243277003574 Thymidine kinase; Region: TK; cl00631 243277003575 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 243277003576 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 243277003577 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 243277003578 substrate binding site [chemical binding]; other site 243277003579 active site 243277003580 catalytic residues [active] 243277003581 heterodimer interface [polypeptide binding]; other site 243277003582 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 243277003583 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 243277003584 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243277003585 catalytic residue [active] 243277003586 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 243277003587 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 243277003588 active site 243277003589 ribulose/triose binding site [chemical binding]; other site 243277003590 phosphate binding site [ion binding]; other site 243277003591 substrate (anthranilate) binding pocket [chemical binding]; other site 243277003592 product (indole) binding pocket [chemical binding]; other site 243277003593 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 243277003594 active site 243277003595 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 243277003596 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 243277003597 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 243277003598 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 243277003599 Glutamine amidotransferase class-I; Region: GATase; pfam00117 243277003600 glutamine binding [chemical binding]; other site 243277003601 catalytic triad [active] 243277003602 anthranilate synthase component I; Provisional; Region: PRK13564 243277003603 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 243277003604 chorismate binding enzyme; Region: Chorismate_bind; cl10555 243277003605 Tryptophan operon leader peptide; Region: Trp_leader2; pfam08056 243277003606 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 243277003607 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 243277003608 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 243277003609 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 243277003610 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 243277003611 PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like. This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluB; cd02556 243277003612 probable active site [active] 243277003613 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 243277003614 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277003615 Walker A/P-loop; other site 243277003616 ATP binding site [chemical binding]; other site 243277003617 Q-loop/lid; other site 243277003618 ABC transporter signature motif; other site 243277003619 Walker B; other site 243277003620 D-loop; other site 243277003621 H-loop/switch region; other site 243277003622 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 243277003623 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 243277003624 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277003625 Walker A/P-loop; other site 243277003626 ATP binding site [chemical binding]; other site 243277003627 Q-loop/lid; other site 243277003628 ABC transporter signature motif; other site 243277003629 Walker B; other site 243277003630 D-loop; other site 243277003631 H-loop/switch region; other site 243277003632 thioredoxin reductase; Provisional; Region: PRK10262 243277003633 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277003634 Uncharacterized protein conserved in bacteria (DUF2257); Region: DUF2257; cl01794 243277003635 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 243277003636 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 243277003637 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 243277003638 catalytic residue [active] 243277003639 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277003640 metal binding site [ion binding]; metal-binding site 243277003641 active site 243277003642 I-site; other site 243277003643 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 243277003644 putative active site [active] 243277003645 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 243277003646 malate dehydrogenase; Provisional; Region: PRK13529 243277003647 Malic enzyme, N-terminal domain; Region: malic; pfam00390 243277003648 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 243277003649 NAD(P) binding site [chemical binding]; other site 243277003650 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 243277003651 ATP binding site [chemical binding]; other site 243277003652 active site 243277003653 substrate binding site [chemical binding]; other site 243277003654 Sel1 repeat; Region: Sel1; cl02723 243277003655 Sel1 repeat; Region: Sel1; cl02723 243277003656 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 243277003657 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 243277003658 ligand binding site [chemical binding]; other site 243277003659 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 243277003660 Protein of unknown function (DUF3334); Region: DUF3334; pfam11813 243277003661 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 243277003662 FAD binding domain; Region: FAD_binding_4; pfam01565 243277003663 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 243277003664 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 243277003665 Secreted trypsin-like serine protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5640 243277003666 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cd00190 243277003667 cleavage site 243277003668 active site 243277003669 substrate binding sites [chemical binding]; other site 243277003670 Protein of unknown function (DUF3581); Region: DUF3581; pfam12119 243277003671 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 243277003672 active sites [active] 243277003673 tetramer interface [polypeptide binding]; other site 243277003674 urocanate hydratase; Provisional; Region: PRK05414 243277003675 urocanate hydratase; Region: hutU; TIGR01228 243277003676 Arginase family; Region: Arginase; cl00306 243277003677 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 243277003678 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 243277003679 active site 243277003680 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 243277003681 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 243277003682 DNA-binding site [nucleotide binding]; DNA binding site 243277003683 UTRA domain; Region: UTRA; cl01230 243277003684 Protein of unknown function (DUF3187); Region: DUF3187; pfam11383 243277003685 Protein of unknown function, DUF440; Region: DUF440; cl11472 243277003686 elongation factor P; Provisional; Region: PRK04542 243277003687 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 243277003688 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 243277003689 RNA binding site [nucleotide binding]; other site 243277003690 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 243277003691 RNA binding site [nucleotide binding]; other site 243277003692 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 243277003693 metal binding triad [ion binding]; metal-binding site 243277003694 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 243277003695 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 243277003696 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 243277003697 DNA polymerase II; Reviewed; Region: PRK05762 243277003698 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 243277003699 active site 243277003700 catalytic site [active] 243277003701 substrate binding site [chemical binding]; other site 243277003702 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 243277003703 active site 243277003704 metal-binding site 243277003705 response regulator; Provisional; Region: PRK09483 243277003706 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277003707 active site 243277003708 phosphorylation site [posttranslational modification] 243277003709 intermolecular recognition site; other site 243277003710 dimerization interface [polypeptide binding]; other site 243277003711 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 243277003712 DNA binding residues [nucleotide binding] 243277003713 dimerization interface [polypeptide binding]; other site 243277003714 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 243277003715 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 243277003716 GIY-YIG motif/motif A; other site 243277003717 active site 243277003718 catalytic site [active] 243277003719 putative DNA binding site [nucleotide binding]; other site 243277003720 metal binding site [ion binding]; metal-binding site 243277003721 UvrB/uvrC motif; Region: UVR; pfam02151 243277003722 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 243277003723 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 243277003724 Hemerythrin [Inorganic ion transport and metabolism]; Region: COG2703 243277003725 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl11605 243277003726 octamerization interface [polypeptide binding]; other site 243277003727 diferric-oxygen binding site [ion binding]; other site 243277003728 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 243277003729 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277003730 metal binding site [ion binding]; metal-binding site 243277003731 active site 243277003732 I-site; other site 243277003733 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 243277003734 Coenzyme A binding pocket [chemical binding]; other site 243277003735 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 243277003736 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 243277003737 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 243277003738 dimer interface [polypeptide binding]; other site 243277003739 motif 1; other site 243277003740 active site 243277003741 motif 2; other site 243277003742 motif 3; other site 243277003743 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 243277003744 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 243277003745 putative tRNA-binding site [nucleotide binding]; other site 243277003746 B3/4 domain; Region: B3_4; cl11458 243277003747 tRNA synthetase B5 domain; Region: B5; cl08394 243277003748 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 243277003749 dimer interface [polypeptide binding]; other site 243277003750 motif 1; other site 243277003751 motif 3; other site 243277003752 motif 2; other site 243277003753 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 243277003754 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 243277003755 IHF dimer interface [polypeptide binding]; other site 243277003756 IHF - DNA interface [nucleotide binding]; other site 243277003757 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 243277003758 metal binding triad [ion binding]; metal-binding site 243277003759 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 243277003760 S-adenosylmethionine binding site [chemical binding]; other site 243277003761 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 243277003762 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277003763 NAD(P) binding site [chemical binding]; other site 243277003764 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 243277003765 Membrane transport protein; Region: Mem_trans; cl09117 243277003766 cytidine deaminase; Provisional; Region: PRK09027 243277003767 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 243277003768 active site 243277003769 catalytic motif [active] 243277003770 Zn binding site [ion binding]; other site 243277003771 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 243277003772 active site 243277003773 catalytic motif [active] 243277003774 Zn binding site [ion binding]; other site 243277003775 LrgB-like family; Region: LrgB; cl00596 243277003776 LrgA family; Region: LrgA; cl00608 243277003777 exonuclease I; Provisional; Region: sbcB; PRK11779 243277003778 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 243277003779 active site 243277003780 substrate binding site [chemical binding]; other site 243277003781 catalytic site [active] 243277003782 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 243277003783 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 243277003784 SelR domain; Region: SelR; cl00369 243277003785 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 243277003786 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 243277003787 putative dimer interface [polypeptide binding]; other site 243277003788 active site pocket [active] 243277003789 putative cataytic base [active] 243277003790 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 243277003791 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 243277003792 homotrimer interface [polypeptide binding]; other site 243277003793 Walker A motif; other site 243277003794 GTP binding site [chemical binding]; other site 243277003795 Walker B motif; other site 243277003796 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 243277003797 catalytic core [active] 243277003798 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 243277003799 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 243277003800 putative active site [active] 243277003801 Zn binding site [ion binding]; other site 243277003802 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 243277003803 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 243277003804 ABC-ATPase subunit interface; other site 243277003805 dimer interface [polypeptide binding]; other site 243277003806 putative PBP binding regions; other site 243277003807 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 243277003808 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 243277003809 Walker A/P-loop; other site 243277003810 ATP binding site [chemical binding]; other site 243277003811 Q-loop/lid; other site 243277003812 ABC transporter signature motif; other site 243277003813 Walker B; other site 243277003814 D-loop; other site 243277003815 H-loop/switch region; other site 243277003816 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 243277003817 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 243277003818 Cache domain; Region: Cache_2; cl07034 243277003819 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 243277003820 dimerization interface [polypeptide binding]; other site 243277003821 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277003822 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277003823 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 243277003824 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 243277003825 hypothetical protein; Provisional; Region: PRK03673 243277003826 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 243277003827 putative MPT binding site; other site 243277003828 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 243277003829 catalytic loop [active] 243277003830 iron binding site [ion binding]; other site 243277003831 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 243277003832 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 243277003833 dimer interface [polypeptide binding]; other site 243277003834 putative radical transfer pathway; other site 243277003835 diiron center [ion binding]; other site 243277003836 tyrosyl radical; other site 243277003837 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 243277003838 ATP cone domain; Region: ATP-cone; pfam03477 243277003839 Class I ribonucleotide reductase; Region: RNR_I; cd01679 243277003840 active site 243277003841 dimer interface [polypeptide binding]; other site 243277003842 catalytic residues [active] 243277003843 effector binding site; other site 243277003844 R2 peptide binding site; other site 243277003845 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 243277003846 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 243277003847 S-adenosylmethionine binding site [chemical binding]; other site 243277003848 DNA gyrase subunit A; Validated; Region: PRK05560 243277003849 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 243277003850 CAP-like domain; other site 243277003851 active site 243277003852 primary dimer interface [polypeptide binding]; other site 243277003853 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 243277003854 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 243277003855 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 243277003856 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 243277003857 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 243277003858 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 243277003859 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 243277003860 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 243277003861 active site residue [active] 243277003862 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 243277003863 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 243277003864 sugar efflux transporter; Region: 2A0120; TIGR00899 243277003865 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 243277003866 putative substrate translocation pore; other site 243277003867 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 243277003868 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 243277003869 dimerization interface [polypeptide binding]; other site 243277003870 active site 243277003871 Imelysin; Region: Peptidase_M75; cl09159 243277003872 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 243277003873 Imelysin; Region: Peptidase_M75; cl09159 243277003874 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3490 243277003875 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 243277003876 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 243277003877 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 243277003878 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 243277003879 Peptidase M15; Region: Peptidase_M15_3; cl01194 243277003880 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 243277003881 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 243277003882 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 243277003883 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 243277003884 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 243277003885 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 243277003886 DctM-like transporters; Region: DctM; pfam06808 243277003887 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 243277003888 Cache domain; Region: Cache_2; cl07034 243277003889 Histidine kinase; Region: HisKA_3; pfam07730 243277003890 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277003891 ATP binding site [chemical binding]; other site 243277003892 Mg2+ binding site [ion binding]; other site 243277003893 G-X-G motif; other site 243277003894 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 243277003895 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277003896 active site 243277003897 phosphorylation site [posttranslational modification] 243277003898 intermolecular recognition site; other site 243277003899 dimerization interface [polypeptide binding]; other site 243277003900 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 243277003901 DNA binding residues [nucleotide binding] 243277003902 dimerization interface [polypeptide binding]; other site 243277003903 Transcriptional regulators [Transcription]; Region: MarR; COG1846 243277003904 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277003905 BCCT family transporter; Region: BCCT; cl00569 243277003906 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 243277003907 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 243277003908 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cl00046 243277003909 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 243277003910 active site 243277003911 P-loop; other site 243277003912 phosphorylation site [posttranslational modification] 243277003913 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 243277003914 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 243277003915 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 243277003916 active site 243277003917 methionine cluster; other site 243277003918 phosphorylation site [posttranslational modification] 243277003919 metal binding site [ion binding]; metal-binding site 243277003920 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 243277003921 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 243277003922 NAD binding site [chemical binding]; other site 243277003923 sugar binding site [chemical binding]; other site 243277003924 divalent metal binding site [ion binding]; other site 243277003925 tetramer (dimer of dimers) interface [polypeptide binding]; other site 243277003926 dimer interface [polypeptide binding]; other site 243277003927 YdjC-like protein; Region: YdjC; cl01344 243277003928 Transcriptional regulators [Transcription]; Region: PurR; COG1609 243277003929 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 243277003930 DNA binding site [nucleotide binding] 243277003931 domain linker motif; other site 243277003932 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 243277003933 dimerization interface (closed form) [polypeptide binding]; other site 243277003934 ligand binding site [chemical binding]; other site 243277003935 Membrane glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: MdoH; COG2943 243277003936 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 243277003937 Ligand binding site; other site 243277003938 DXD motif; other site 243277003939 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 243277003940 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 243277003941 Cache domain; Region: Cache_1; pfam02743 243277003942 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 243277003943 dimerization interface [polypeptide binding]; other site 243277003944 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277003945 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 243277003946 active site 243277003947 substrate binding site [chemical binding]; other site 243277003948 catalytic site [active] 243277003949 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 243277003950 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 243277003951 ligand binding site [chemical binding]; other site 243277003952 flexible hinge region; other site 243277003953 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 243277003954 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 243277003955 metal binding triad; other site 243277003956 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 243277003957 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 243277003958 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243277003959 homodimer interface [polypeptide binding]; other site 243277003960 catalytic residue [active] 243277003961 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 243277003962 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 243277003963 Zn2+ binding site [ion binding]; other site 243277003964 Mg2+ binding site [ion binding]; other site 243277003965 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 243277003966 dimer interface [polypeptide binding]; other site 243277003967 substrate binding site [chemical binding]; other site 243277003968 ATP binding site [chemical binding]; other site 243277003969 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 243277003970 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 243277003971 putative dimer interface [polypeptide binding]; other site 243277003972 putative anticodon binding site; other site 243277003973 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 243277003974 homodimer interface [polypeptide binding]; other site 243277003975 motif 1; other site 243277003976 motif 2; other site 243277003977 active site 243277003978 motif 3; other site 243277003979 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 243277003980 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 243277003981 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277003982 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277003983 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 243277003984 active site 243277003985 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 243277003986 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 243277003987 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 243277003988 Amino acid permease; Region: AA_permease; cl00524 243277003989 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 243277003990 putative active site [active] 243277003991 putative CoA binding site [chemical binding]; other site 243277003992 nudix motif; other site 243277003993 metal binding site [ion binding]; metal-binding site 243277003994 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 243277003995 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 243277003996 chorismate binding enzyme; Region: Chorismate_bind; cl10555 243277003997 fumarate hydratase FumA; Provisional; Region: PRK15390 243277003998 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 243277003999 Fumarase C-terminus; Region: Fumerase_C; cl00795 243277004000 YcjX-like family, DUF463; Region: DUF463; cl01193 243277004001 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 243277004002 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 243277004003 putative aromatic amino acid binding site; other site 243277004004 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 243277004005 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 243277004006 Walker A motif; other site 243277004007 ATP binding site [chemical binding]; other site 243277004008 Walker B motif; other site 243277004009 arginine finger; other site 243277004010 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 243277004011 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277004012 Protein of unknown function (DUF2947); Region: DUF2947; pfam11163 243277004013 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 243277004014 EamA-like transporter family; Region: EamA; cl01037 243277004015 alanine racemase; Reviewed; Region: PRK13340 243277004016 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme, Alanine Racemase 2; Region: PLPDE_III_AR2; cd06826 243277004017 active site 243277004018 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 243277004019 dimer interface [polypeptide binding]; other site 243277004020 substrate binding site [chemical binding]; other site 243277004021 catalytic residues [active] 243277004022 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 243277004023 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 243277004024 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277004025 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277004026 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 243277004027 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 243277004028 transmembrane helices; other site 243277004029 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 243277004030 ligand binding site [chemical binding]; other site 243277004031 flexible hinge region; other site 243277004032 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 243277004033 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277004034 ATP binding site [chemical binding]; other site 243277004035 Mg2+ binding site [ion binding]; other site 243277004036 G-X-G motif; other site 243277004037 Response regulator receiver domain; Region: Response_reg; pfam00072 243277004038 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277004039 active site 243277004040 phosphorylation site [posttranslational modification] 243277004041 intermolecular recognition site; other site 243277004042 dimerization interface [polypeptide binding]; other site 243277004043 Protein of unknown function (DUF535); Region: DUF535; cl01128 243277004044 MltA-interacting protein MipA; Region: MipA; cl01504 243277004045 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 243277004046 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 243277004047 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 243277004048 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277004049 ATP binding site [chemical binding]; other site 243277004050 Mg2+ binding site [ion binding]; other site 243277004051 G-X-G motif; other site 243277004052 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277004053 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 243277004054 active site 243277004055 phosphorylation site [posttranslational modification] 243277004056 intermolecular recognition site; other site 243277004057 dimerization interface [polypeptide binding]; other site 243277004058 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 243277004059 DNA binding site [nucleotide binding] 243277004060 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 243277004061 Transglycosylase; Region: Transgly; cl07896 243277004062 Protein of unknown function (DUF539); Region: DUF539; cl01129 243277004063 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 243277004064 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 243277004065 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 243277004066 ligand binding site [chemical binding]; other site 243277004067 calcium binding site [ion binding]; other site 243277004068 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277004069 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 243277004070 Walker A/P-loop; other site 243277004071 ATP binding site [chemical binding]; other site 243277004072 Q-loop/lid; other site 243277004073 ABC transporter signature motif; other site 243277004074 Walker B; other site 243277004075 D-loop; other site 243277004076 H-loop/switch region; other site 243277004077 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 243277004078 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 243277004079 TM-ABC transporter signature motif; other site 243277004080 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 243277004081 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 243277004082 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 243277004083 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 243277004084 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 243277004085 Transcriptional regulators [Transcription]; Region: GntR; COG1802 243277004086 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 243277004087 DNA-binding site [nucleotide binding]; DNA binding site 243277004088 FCD domain; Region: FCD; cl11656 243277004089 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 243277004090 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 243277004091 tetramer interface [polypeptide binding]; other site 243277004092 active site 243277004093 Mg2+/Mn2+ binding site [ion binding]; other site 243277004094 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) catalyzes...; Region: Ec2MCS_like; cd06108 243277004095 dimer interface [polypeptide binding]; other site 243277004096 Citrate synthase; Region: Citrate_synt; pfam00285 243277004097 active site 243277004098 citrylCoA binding site [chemical binding]; other site 243277004099 oxalacetate/citrate binding site [chemical binding]; other site 243277004100 coenzyme A binding site [chemical binding]; other site 243277004101 catalytic triad [active] 243277004102 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 243277004103 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 243277004104 substrate binding site [chemical binding]; other site 243277004105 ligand binding site [chemical binding]; other site 243277004106 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 243277004107 substrate binding site [chemical binding]; other site 243277004108 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 243277004109 PrpF protein; Region: PrpF; pfam04303 243277004110 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 243277004111 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 243277004112 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 243277004113 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 243277004114 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 243277004115 Coenzyme A binding pocket [chemical binding]; other site 243277004116 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 243277004117 nudix motif; other site 243277004118 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 243277004119 peptidase T-like protein; Region: PepT-like; TIGR01883 243277004120 metal binding site [ion binding]; metal-binding site 243277004121 putative dimer interface [polypeptide binding]; other site 243277004122 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 243277004123 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 243277004124 dimer interface [polypeptide binding]; other site 243277004125 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 243277004126 active site 243277004127 Fe binding site [ion binding]; other site 243277004128 Cupin domain; Region: Cupin_2; cl09118 243277004129 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 243277004130 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 243277004131 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 243277004132 maleylacetoacetate isomerase; Region: maiA; TIGR01262 243277004133 C-terminal domain interface [polypeptide binding]; other site 243277004134 GSH binding site (G-site) [chemical binding]; other site 243277004135 putative dimer interface [polypeptide binding]; other site 243277004136 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 243277004137 dimer interface [polypeptide binding]; other site 243277004138 N-terminal domain interface [polypeptide binding]; other site 243277004139 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 243277004140 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 243277004141 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277004142 active site 243277004143 phosphorylation site [posttranslational modification] 243277004144 intermolecular recognition site; other site 243277004145 dimerization interface [polypeptide binding]; other site 243277004146 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 243277004147 Zn2+ binding site [ion binding]; other site 243277004148 Mg2+ binding site [ion binding]; other site 243277004149 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 243277004150 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 243277004151 putative active site [active] 243277004152 heme pocket [chemical binding]; other site 243277004153 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 243277004154 dimer interface [polypeptide binding]; other site 243277004155 phosphorylation site [posttranslational modification] 243277004156 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277004157 ATP binding site [chemical binding]; other site 243277004158 Mg2+ binding site [ion binding]; other site 243277004159 G-X-G motif; other site 243277004160 Response regulator receiver domain; Region: Response_reg; pfam00072 243277004161 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277004162 active site 243277004163 phosphorylation site [posttranslational modification] 243277004164 intermolecular recognition site; other site 243277004165 dimerization interface [polypeptide binding]; other site 243277004166 Response regulator receiver domain; Region: Response_reg; pfam00072 243277004167 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277004168 active site 243277004169 phosphorylation site [posttranslational modification] 243277004170 intermolecular recognition site; other site 243277004171 dimerization interface [polypeptide binding]; other site 243277004172 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 243277004173 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 243277004174 catalytic triad [active] 243277004175 dimer interface [polypeptide binding]; other site 243277004176 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 243277004177 Two component regulator propeller; Region: Reg_prop; pfam07494 243277004178 Two component regulator propeller; Region: Reg_prop; pfam07494 243277004179 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 243277004180 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277004181 metal binding site [ion binding]; metal-binding site 243277004182 active site 243277004183 I-site; other site 243277004184 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 243277004185 PUA domain; Region: PUA; cl00607 243277004186 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 243277004187 S-adenosylmethionine binding site [chemical binding]; other site 243277004188 Acylphosphatase; Region: Acylphosphatase; cl00551 243277004189 DsrC like protein; Region: DsrC; cl01101 243277004190 YccA-like proteins; Region: YccA_like; cd10433 243277004191 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277004192 dimer interface [polypeptide binding]; other site 243277004193 conserved gate region; other site 243277004194 putative PBP binding loops; other site 243277004195 ABC-ATPase subunit interface; other site 243277004196 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 243277004197 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 243277004198 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277004199 dimer interface [polypeptide binding]; other site 243277004200 conserved gate region; other site 243277004201 putative PBP binding loops; other site 243277004202 ABC-ATPase subunit interface; other site 243277004203 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 243277004204 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 243277004205 substrate binding pocket [chemical binding]; other site 243277004206 membrane-bound complex binding site; other site 243277004207 hinge residues; other site 243277004208 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 243277004209 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277004210 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 243277004211 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 243277004212 sugar phosphate phosphatase; Provisional; Region: PRK10513 243277004213 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 243277004214 active site 243277004215 motif I; other site 243277004216 motif II; other site 243277004217 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 243277004218 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 243277004219 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 243277004220 Ligand Binding Site [chemical binding]; other site 243277004221 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 243277004222 binding surface 243277004223 TPR motif; other site 243277004224 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 243277004225 binding surface 243277004226 TPR motif; other site 243277004227 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277004228 metal binding site [ion binding]; metal-binding site 243277004229 active site 243277004230 I-site; other site 243277004231 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl15306 243277004232 substrate binding pocket [chemical binding]; other site 243277004233 NMT1/THI5 like; Region: NMT1; pfam09084 243277004234 membrane-bound complex binding site; other site 243277004235 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 243277004236 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 243277004237 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277004238 metal binding site [ion binding]; metal-binding site 243277004239 active site 243277004240 I-site; other site 243277004241 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277004242 metal binding site [ion binding]; metal-binding site 243277004243 active site 243277004244 I-site; other site 243277004245 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 243277004246 DNA-K related protein; Region: DUF3731; pfam12531 243277004247 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 243277004248 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 243277004249 CHASE domain; Region: CHASE; cl01369 243277004250 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277004251 metal binding site [ion binding]; metal-binding site 243277004252 active site 243277004253 I-site; other site 243277004254 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 243277004255 active site 243277004256 substrate binding site [chemical binding]; other site 243277004257 catalytic site [active] 243277004258 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 243277004259 putative metal binding site [ion binding]; other site 243277004260 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 243277004261 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 243277004262 ATP binding site [chemical binding]; other site 243277004263 putative Mg++ binding site [ion binding]; other site 243277004264 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 243277004265 nucleotide binding region [chemical binding]; other site 243277004266 ATP-binding site [chemical binding]; other site 243277004267 Helicase associated domain (HA2); Region: HA2; cl04503 243277004268 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 243277004269 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 243277004270 putative chaperone; Provisional; Region: PRK11678 243277004271 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 243277004272 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 243277004273 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 243277004274 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 243277004275 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; cl01792 243277004276 Transcriptional regulator [Transcription]; Region: LysR; COG0583 243277004277 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277004278 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 243277004279 putative effector binding pocket; other site 243277004280 dimerization interface [polypeptide binding]; other site 243277004281 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 243277004282 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 243277004283 putative substrate translocation pore; other site 243277004284 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 243277004285 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 243277004286 DNA photolyase; Region: DNA_photolyase; pfam00875 243277004287 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 243277004288 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 243277004289 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 243277004290 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277004291 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 243277004292 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 243277004293 putative binding surface; other site 243277004294 active site 243277004295 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 243277004296 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277004297 ATP binding site [chemical binding]; other site 243277004298 Mg2+ binding site [ion binding]; other site 243277004299 G-X-G motif; other site 243277004300 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 243277004301 Response regulator receiver domain; Region: Response_reg; pfam00072 243277004302 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277004303 active site 243277004304 phosphorylation site [posttranslational modification] 243277004305 intermolecular recognition site; other site 243277004306 dimerization interface [polypeptide binding]; other site 243277004307 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 243277004308 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 243277004309 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; cl12011 243277004310 conserved hypothetical protein; Region: TIGR02270 243277004311 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 243277004312 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277004313 active site 243277004314 phosphorylation site [posttranslational modification] 243277004315 intermolecular recognition site; other site 243277004316 dimerization interface [polypeptide binding]; other site 243277004317 CheB methylesterase; Region: CheB_methylest; pfam01339 243277004318 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 243277004319 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 243277004320 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 243277004321 putative CheA interaction surface; other site 243277004322 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277004323 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277004324 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277004325 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277004326 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 243277004327 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 243277004328 dimerization interface [polypeptide binding]; other site 243277004329 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277004330 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 243277004331 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 243277004332 putative active site [active] 243277004333 heme pocket [chemical binding]; other site 243277004334 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 243277004335 putative active site [active] 243277004336 heme pocket [chemical binding]; other site 243277004337 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277004338 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 243277004339 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 243277004340 ATP binding site [chemical binding]; other site 243277004341 Mg++ binding site [ion binding]; other site 243277004342 motif III; other site 243277004343 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 243277004344 nucleotide binding region [chemical binding]; other site 243277004345 ATP-binding site [chemical binding]; other site 243277004346 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 243277004347 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277004348 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 243277004349 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 243277004350 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 243277004351 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 243277004352 putative substrate translocation pore; other site 243277004353 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 243277004354 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 243277004355 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 243277004356 dimerization interface [polypeptide binding]; other site 243277004357 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277004358 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 243277004359 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 243277004360 active site 243277004361 Zn binding site [ion binding]; other site 243277004362 Protein of unknown function (DUF796); Region: DUF796; cl01226 243277004363 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 243277004364 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 243277004365 Predicted lipase [Lipid metabolism]; Region: COG3675 243277004366 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 243277004367 active site flap/lid [active] 243277004368 nucleophilic elbow; other site 243277004369 catalytic triad [active] 243277004370 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 243277004371 LysE type translocator; Region: LysE; cl00565 243277004372 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 243277004373 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 243277004374 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 243277004375 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 243277004376 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 243277004377 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277004378 dimer interface [polypeptide binding]; other site 243277004379 conserved gate region; other site 243277004380 putative PBP binding loops; other site 243277004381 ABC-ATPase subunit interface; other site 243277004382 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 243277004383 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277004384 dimer interface [polypeptide binding]; other site 243277004385 conserved gate region; other site 243277004386 putative PBP binding loops; other site 243277004387 ABC-ATPase subunit interface; other site 243277004388 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 243277004389 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 243277004390 Walker A/P-loop; other site 243277004391 ATP binding site [chemical binding]; other site 243277004392 Q-loop/lid; other site 243277004393 ABC transporter signature motif; other site 243277004394 Walker B; other site 243277004395 D-loop; other site 243277004396 H-loop/switch region; other site 243277004397 TOBE domain; Region: TOBE_2; cl01440 243277004398 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 243277004399 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 243277004400 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 243277004401 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 243277004402 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 243277004403 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 243277004404 Ligand Binding Site [chemical binding]; other site 243277004405 universal stress protein UspE; Provisional; Region: PRK11175 243277004406 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 243277004407 Ligand Binding Site [chemical binding]; other site 243277004408 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 243277004409 Ligand Binding Site [chemical binding]; other site 243277004410 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 243277004411 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 243277004412 ligand binding site [chemical binding]; other site 243277004413 flexible hinge region; other site 243277004414 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 243277004415 putative switch regulator; other site 243277004416 non-specific DNA interactions [nucleotide binding]; other site 243277004417 DNA binding site [nucleotide binding] 243277004418 sequence specific DNA binding site [nucleotide binding]; other site 243277004419 putative cAMP binding site [chemical binding]; other site 243277004420 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 243277004421 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 243277004422 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 243277004423 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 243277004424 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 243277004425 metal-binding site [ion binding] 243277004426 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 243277004427 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 243277004428 motif II; other site 243277004429 FixH; Region: FixH; cl01254 243277004430 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 243277004431 Cytochrome c; Region: Cytochrom_C; cl11414 243277004432 Cytochrome c; Region: Cytochrom_C; cl11414 243277004433 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 243277004434 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 243277004435 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 243277004436 Low-spin heme binding site [chemical binding]; other site 243277004437 Putative water exit pathway; other site 243277004438 Binuclear center (active site) [active] 243277004439 Putative proton exit pathway; other site 243277004440 Uncharacterized conserved protein [Function unknown]; Region: COG3287 243277004441 FIST N domain; Region: FIST; cl10701 243277004442 FIST C domain; Region: FIST_C; pfam10442 243277004443 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 243277004444 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 243277004445 dimer interface [polypeptide binding]; other site 243277004446 phosphorylation site [posttranslational modification] 243277004447 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277004448 ATP binding site [chemical binding]; other site 243277004449 Mg2+ binding site [ion binding]; other site 243277004450 G-X-G motif; other site 243277004451 Response regulator receiver domain; Region: Response_reg; pfam00072 243277004452 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277004453 active site 243277004454 phosphorylation site [posttranslational modification] 243277004455 intermolecular recognition site; other site 243277004456 dimerization interface [polypeptide binding]; other site 243277004457 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39_likeD; cd02421 243277004458 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 243277004459 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 243277004460 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277004461 Walker A/P-loop; other site 243277004462 ATP binding site [chemical binding]; other site 243277004463 Q-loop/lid; other site 243277004464 ABC transporter signature motif; other site 243277004465 Walker B; other site 243277004466 D-loop; other site 243277004467 H-loop/switch region; other site 243277004468 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 243277004469 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cd02259 243277004470 putative active site [active] 243277004471 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 243277004472 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 243277004473 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277004474 Walker A/P-loop; other site 243277004475 ATP binding site [chemical binding]; other site 243277004476 Q-loop/lid; other site 243277004477 ABC transporter signature motif; other site 243277004478 Walker B; other site 243277004479 D-loop; other site 243277004480 H-loop/switch region; other site 243277004481 RTX toxin acyltransferase family; Region: HlyC; cl01131 243277004482 hypothetical protein; Provisional; Region: PHA02515 243277004483 electron transport complex protein RnfC; Provisional; Region: PRK05035 243277004484 C-terminal region of Pasteurella multocida toxin residues 569-1285; Region: PMT_C; pfam11647 243277004485 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 243277004486 Peptidase C80 family; Region: Peptidase_C80; pfam11713 243277004487 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 243277004488 CTX phage RstB protein; Region: CTX_RstB; pfam07459 243277004489 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 243277004490 Replication initiation factor; Region: Rep_trans; pfam02486 243277004491 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 243277004492 non-specific DNA binding site [nucleotide binding]; other site 243277004493 salt bridge; other site 243277004494 sequence-specific DNA binding site [nucleotide binding]; other site 243277004495 Heat-labile enterotoxin beta chain; Region: Enterotoxin_b; pfam01376 243277004496 Heat-labile enterotoxin alpha chain; Region: Enterotoxin_a; pfam01375 243277004497 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277004498 hypothetical protein; Region: PHA01159 243277004499 CTX phage RstB protein; Region: CTX_RstB; pfam07459 243277004500 Putative phage replication protein RstA [DNA replication, recombination, and repair]; Region: COG2946 243277004501 Replication initiation factor; Region: Rep_trans; pfam02486 243277004502 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 243277004503 non-specific DNA binding site [nucleotide binding]; other site 243277004504 salt bridge; other site 243277004505 sequence-specific DNA binding site [nucleotide binding]; other site 243277004506 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 243277004507 non-specific DNA binding site [nucleotide binding]; other site 243277004508 salt bridge; other site 243277004509 sequence-specific DNA binding site [nucleotide binding]; other site 243277004510 Phage protein; Region: DUF3653; pfam12375 243277004511 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 243277004512 non-specific DNA binding site [nucleotide binding]; other site 243277004513 salt bridge; other site 243277004514 sequence-specific DNA binding site [nucleotide binding]; other site 243277004515 Phage replication protein CRI; Region: Phage_CRI; pfam05144 243277004516 phage/plasmid replication protein, gene II/X family; Region: rep_II_X; TIGR01629 243277004517 Phage X family; Region: Phage_X; cl11585 243277004518 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 243277004519 non-specific DNA binding site [nucleotide binding]; other site 243277004520 salt bridge; other site 243277004521 sequence-specific DNA binding site [nucleotide binding]; other site 243277004522 Phage replication protein CRI; Region: Phage_CRI; pfam05144 243277004523 phage/plasmid replication protein, gene II/X family; Region: rep_II_X; TIGR01629 243277004524 Phage X family; Region: Phage_X; cl11585 243277004525 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277004526 putative transposase OrfB; Reviewed; Region: PHA02517 243277004527 Integrase core domain; Region: rve; cl01316 243277004528 Protein of unknown function (DUF3634); Region: DUF3634; pfam12321 243277004529 Organiser of macrodomain of Terminus of chromosome; Region: MatP; cl11476 243277004530 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 243277004531 Protein of unknown function (DUF1687); Region: DUF1687; pfam07955 243277004532 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 243277004533 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 243277004534 active site 1 [active] 243277004535 dimer interface [polypeptide binding]; other site 243277004536 active site 2 [active] 243277004537 Ribosome modulation factor; Region: RMF; cl01207 243277004538 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 243277004539 ABC transporter ATPase component; Reviewed; Region: PRK11147 243277004540 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 243277004541 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 243277004542 ABC transporter; Region: ABC_tran_2; pfam12848 243277004543 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 243277004544 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 243277004545 catalytic residues [active] 243277004546 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 243277004547 THUMP domain; Region: THUMP; cl12076 243277004548 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; cl12011 243277004549 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 243277004550 S-adenosylmethionine binding site [chemical binding]; other site 243277004551 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 243277004552 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 243277004553 quinone interaction residues [chemical binding]; other site 243277004554 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 243277004555 active site 243277004556 catalytic residues [active] 243277004557 FMN binding site [chemical binding]; other site 243277004558 substrate binding site [chemical binding]; other site 243277004559 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 243277004560 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 243277004561 aminopeptidase N; Provisional; Region: pepN; PRK14015 243277004562 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 243277004563 active site 243277004564 Zn binding site [ion binding]; other site 243277004565 carboxy-terminal protease; Provisional; Region: PRK11186 243277004566 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 243277004567 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 243277004568 protein binding site [polypeptide binding]; other site 243277004569 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 243277004570 Catalytic dyad [active] 243277004571 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 243277004572 ProP expression regulator; Provisional; Region: PRK04950 243277004573 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 243277004574 GAF domain; Region: GAF; cl00853 243277004575 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 243277004576 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 243277004577 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277004578 Walker A/P-loop; other site 243277004579 ATP binding site [chemical binding]; other site 243277004580 Q-loop/lid; other site 243277004581 ABC transporter signature motif; other site 243277004582 Walker B; other site 243277004583 D-loop; other site 243277004584 H-loop/switch region; other site 243277004585 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 243277004586 Paraquat-inducible protein A; Region: PqiA; pfam04403 243277004587 Paraquat-inducible protein A; Region: PqiA; pfam04403 243277004588 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 243277004589 mce related protein; Region: MCE; cl15431 243277004590 mce related protein; Region: MCE; cl15431 243277004591 mce related protein; Region: MCE; cl15431 243277004592 mce related protein; Region: MCE; cl15431 243277004593 mce related protein; Region: MCE; cl15431 243277004594 mce related protein; Region: MCE; cl15431 243277004595 mce related protein; Region: MCE; cl15431 243277004596 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 243277004597 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; cl12011 243277004598 Uncharacterized conserved protein [Function unknown]; Region: COG3270 243277004599 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 243277004600 NeuB family; Region: NeuB; cl00496 243277004601 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 243277004602 Protein of unknown function (DUF520); Region: DUF520; cl00723 243277004603 NAD-dependent deacetylase; Provisional; Region: PRK14138 243277004604 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 243277004605 NAD+ binding site [chemical binding]; other site 243277004606 substrate binding site [chemical binding]; other site 243277004607 Zn binding site [ion binding]; other site 243277004608 Predicted membrane protein [Function unknown]; Region: COG3671 243277004609 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 243277004610 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 243277004611 4Fe-4S binding domain; Region: Fer4; cl02805 243277004612 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 243277004613 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 243277004614 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 243277004615 Ferredoxin [Energy production and conversion]; Region: COG1146 243277004616 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 243277004617 4Fe-4S binding domain; Region: Fer4; cl02805 243277004618 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 243277004619 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 243277004620 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 243277004621 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 243277004622 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 243277004623 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277004624 Walker A/P-loop; other site 243277004625 ATP binding site [chemical binding]; other site 243277004626 Q-loop/lid; other site 243277004627 ABC transporter signature motif; other site 243277004628 Walker B; other site 243277004629 D-loop; other site 243277004630 H-loop/switch region; other site 243277004631 ABC transporter; Region: ABC_tran_2; pfam12848 243277004632 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 243277004633 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 243277004634 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 243277004635 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 243277004636 dimer interface [polypeptide binding]; other site 243277004637 phosphorylation site [posttranslational modification] 243277004638 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277004639 ATP binding site [chemical binding]; other site 243277004640 Mg2+ binding site [ion binding]; other site 243277004641 G-X-G motif; other site 243277004642 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 243277004643 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277004644 active site 243277004645 phosphorylation site [posttranslational modification] 243277004646 intermolecular recognition site; other site 243277004647 dimerization interface [polypeptide binding]; other site 243277004648 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 243277004649 Walker A motif; other site 243277004650 ATP binding site [chemical binding]; other site 243277004651 Walker B motif; other site 243277004652 arginine finger; other site 243277004653 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277004654 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 243277004655 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277004656 dimer interface [polypeptide binding]; other site 243277004657 conserved gate region; other site 243277004658 putative PBP binding loops; other site 243277004659 ABC-ATPase subunit interface; other site 243277004660 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 243277004661 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 243277004662 Walker A/P-loop; other site 243277004663 ATP binding site [chemical binding]; other site 243277004664 Q-loop/lid; other site 243277004665 ABC transporter signature motif; other site 243277004666 Walker B; other site 243277004667 D-loop; other site 243277004668 H-loop/switch region; other site 243277004669 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 243277004670 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 243277004671 GTP binding site; other site 243277004672 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoeA; Provisional; Region: PRK14491 243277004673 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 243277004674 Walker A motif; other site 243277004675 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 243277004676 dimer interface [polypeptide binding]; other site 243277004677 putative functional site; other site 243277004678 putative MPT binding site; other site 243277004679 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 243277004680 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 243277004681 Protein of unknown function (DUF2960); Region: DUF2960; pfam11173 243277004682 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 243277004683 fructokinase; Reviewed; Region: PRK09557 243277004684 DTW domain; Region: DTW; cl01221 243277004685 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 243277004686 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 243277004687 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277004688 NlpC/P60 family; Region: NLPC_P60; cl11438 243277004689 Protein of unknown function (DUF3802); Region: DUF3802; pfam12290 243277004690 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 243277004691 Phosphotransferase enzyme family; Region: APH; pfam01636 243277004692 active site 243277004693 ATP binding site [chemical binding]; other site 243277004694 multidrug efflux protein; Reviewed; Region: PRK01766 243277004695 MatE; Region: MatE; cl10513 243277004696 MatE; Region: MatE; cl10513 243277004697 Protein of unknown function (DUF3080); Region: DUF3080; pfam11279 243277004698 DNA ligase; Provisional; Region: PRK09125 243277004699 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 243277004700 DNA binding site [nucleotide binding] 243277004701 active site 243277004702 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 243277004703 DNA binding site [nucleotide binding] 243277004704 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 243277004705 Gram-negative bacterial tonB protein; Region: TonB; cl10048 243277004706 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 243277004707 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 243277004708 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 243277004709 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 243277004710 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 243277004711 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 243277004712 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 243277004713 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 243277004714 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277004715 dimer interface [polypeptide binding]; other site 243277004716 conserved gate region; other site 243277004717 putative PBP binding loops; other site 243277004718 ABC-ATPase subunit interface; other site 243277004719 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 243277004720 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 243277004721 Walker A/P-loop; other site 243277004722 ATP binding site [chemical binding]; other site 243277004723 Q-loop/lid; other site 243277004724 ABC transporter signature motif; other site 243277004725 Walker B; other site 243277004726 D-loop; other site 243277004727 H-loop/switch region; other site 243277004728 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 243277004729 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277004730 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 243277004731 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 243277004732 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 243277004733 putative active site [active] 243277004734 catalytic site [active] 243277004735 putative metal binding site [ion binding]; other site 243277004736 Domain of unknown function (DUF386); Region: DUF386; cl01047 243277004737 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 243277004738 homotrimer interaction site [polypeptide binding]; other site 243277004739 putative active site [active] 243277004740 Transcriptional regulators [Transcription]; Region: PurR; COG1609 243277004741 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 243277004742 DNA binding site [nucleotide binding] 243277004743 domain linker motif; other site 243277004744 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 243277004745 dimerization interface (closed form) [polypeptide binding]; other site 243277004746 ligand binding site [chemical binding]; other site 243277004747 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 243277004748 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 243277004749 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 243277004750 dimer interface [polypeptide binding]; other site 243277004751 active site 243277004752 heme binding site [chemical binding]; other site 243277004753 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 243277004754 Transcriptional regulator [Transcription]; Region: LysR; COG0583 243277004755 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277004756 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 243277004757 substrate binding pocket [chemical binding]; other site 243277004758 dimerization interface [polypeptide binding]; other site 243277004759 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 243277004760 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 243277004761 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 243277004762 lipoyl-biotinyl attachment site [posttranslational modification]; other site 243277004763 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 243277004764 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 243277004765 FtsX-like permease family; Region: FtsX; pfam02687 243277004766 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 243277004767 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 243277004768 FtsX-like permease family; Region: FtsX; pfam02687 243277004769 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 243277004770 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 243277004771 Walker A/P-loop; other site 243277004772 ATP binding site [chemical binding]; other site 243277004773 Q-loop/lid; other site 243277004774 ABC transporter signature motif; other site 243277004775 Walker B; other site 243277004776 D-loop; other site 243277004777 H-loop/switch region; other site 243277004778 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 243277004779 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 243277004780 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 243277004781 fumarate hydratase; Reviewed; Region: fumC; PRK00485 243277004782 Class II fumarases; Region: Fumarase_classII; cd01362 243277004783 active site 243277004784 tetramer interface [polypeptide binding]; other site 243277004785 Protein of unknown function, DUF486; Region: DUF486; cl01236 243277004786 Predicted membrane protein (DUF2127); Region: DUF2127; cl01785 243277004787 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 243277004788 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 243277004789 putative acyl-acceptor binding pocket; other site 243277004790 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 243277004791 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 243277004792 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 243277004793 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 243277004794 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277004795 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 243277004796 dimerization interface [polypeptide binding]; other site 243277004797 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 243277004798 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 243277004799 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 243277004800 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 243277004801 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 243277004802 E-class dimer interface [polypeptide binding]; other site 243277004803 P-class dimer interface [polypeptide binding]; other site 243277004804 active site 243277004805 Cu2+ binding site [ion binding]; other site 243277004806 Zn2+ binding site [ion binding]; other site 243277004807 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 243277004808 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 243277004809 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 243277004810 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 243277004811 tetramer interface [polypeptide binding]; other site 243277004812 heme binding pocket [chemical binding]; other site 243277004813 Protein of unknown function, DUF417; Region: DUF417; cl01162 243277004814 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277004815 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 243277004816 putative dimerization interface [polypeptide binding]; other site 243277004817 putative substrate binding pocket [chemical binding]; other site 243277004818 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 243277004819 acetolactate synthase; Reviewed; Region: PRK08617 243277004820 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 243277004821 PYR/PP interface [polypeptide binding]; other site 243277004822 dimer interface [polypeptide binding]; other site 243277004823 TPP binding site [chemical binding]; other site 243277004824 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 243277004825 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 243277004826 TPP-binding site [chemical binding]; other site 243277004827 dimer interface [polypeptide binding]; other site 243277004828 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 243277004829 classical (c) SDRs; Region: SDR_c; cd05233 243277004830 NAD(P) binding site [chemical binding]; other site 243277004831 active site 243277004832 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 243277004833 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277004834 metal binding site [ion binding]; metal-binding site 243277004835 active site 243277004836 I-site; other site 243277004837 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 243277004838 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 243277004839 active site 243277004840 catalytic residues [active] 243277004841 galactokinase; Provisional; Region: PRK05101 243277004842 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 243277004843 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 243277004844 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 243277004845 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 243277004846 dimer interface [polypeptide binding]; other site 243277004847 active site 243277004848 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 243277004849 Major Facilitator Superfamily; Region: MFS_1; pfam07690 243277004850 putative substrate translocation pore; other site 243277004851 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 243277004852 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 243277004853 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl15306 243277004854 substrate binding pocket [chemical binding]; other site 243277004855 membrane-bound complex binding site; other site 243277004856 hinge residues; other site 243277004857 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]; Region: COG5001 243277004858 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277004859 metal binding site [ion binding]; metal-binding site 243277004860 active site 243277004861 I-site; other site 243277004862 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 243277004863 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 243277004864 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 243277004865 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 243277004866 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277004867 active site 243277004868 phosphorylation site [posttranslational modification] 243277004869 intermolecular recognition site; other site 243277004870 dimerization interface [polypeptide binding]; other site 243277004871 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 243277004872 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl15306 243277004873 substrate binding pocket [chemical binding]; other site 243277004874 membrane-bound complex binding site; other site 243277004875 hinge residues; other site 243277004876 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 243277004877 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277004878 active site 243277004879 phosphorylation site [posttranslational modification] 243277004880 intermolecular recognition site; other site 243277004881 dimerization interface [polypeptide binding]; other site 243277004882 Transcriptional regulator; Region: CitT; pfam12431 243277004883 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277004884 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 243277004885 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 243277004886 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277004887 ATP binding site [chemical binding]; other site 243277004888 Mg2+ binding site [ion binding]; other site 243277004889 G-X-G motif; other site 243277004890 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 243277004891 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 243277004892 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 243277004893 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 243277004894 Predicted membrane protein [Function unknown]; Region: COG1511 243277004895 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 243277004896 ABC-2 type transporter; Region: ABC2_membrane; cl11417 243277004897 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277004898 homoserine O-succinyltransferase; Provisional; Region: PRK05368 243277004899 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 243277004900 proposed active site lysine [active] 243277004901 conserved cys residue [active] 243277004902 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 243277004903 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 243277004904 binding surface 243277004905 TPR motif; other site 243277004906 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 243277004907 binding surface 243277004908 TPR motif; other site 243277004909 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; cl12011 243277004910 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 243277004911 Protein of unknown function DUF45; Region: DUF45; cl00636 243277004912 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 243277004913 catalytic residues [active] 243277004914 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 243277004915 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277004916 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 243277004917 dimerization interface [polypeptide binding]; other site 243277004918 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 243277004919 Major Facilitator Superfamily; Region: MFS_1; pfam07690 243277004920 putative substrate translocation pore; other site 243277004921 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 243277004922 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 243277004923 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 243277004924 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 243277004925 ligand binding site [chemical binding]; other site 243277004926 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 243277004927 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 243277004928 dimer interface [polypeptide binding]; other site 243277004929 active site 243277004930 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 243277004931 catalytic residues [active] 243277004932 substrate binding site [chemical binding]; other site 243277004933 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 243277004934 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277004935 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 243277004936 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 243277004937 FtsX-like permease family; Region: FtsX; pfam02687 243277004938 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 243277004939 FtsX-like permease family; Region: FtsX; pfam02687 243277004940 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 243277004941 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 243277004942 Walker A/P-loop; other site 243277004943 ATP binding site [chemical binding]; other site 243277004944 Q-loop/lid; other site 243277004945 ABC transporter signature motif; other site 243277004946 Walker B; other site 243277004947 D-loop; other site 243277004948 H-loop/switch region; other site 243277004949 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 243277004950 MatE; Region: MatE; cl10513 243277004951 MatE; Region: MatE; cl10513 243277004952 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 243277004953 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277004954 NAD(P) binding site [chemical binding]; other site 243277004955 active site 243277004956 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 243277004957 Protein of unknown function (DUF2913); Region: DUF2913; pfam11140 243277004958 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 243277004959 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 243277004960 putative substrate translocation pore; other site 243277004961 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 243277004962 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 243277004963 RNA binding surface [nucleotide binding]; other site 243277004964 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 243277004965 active site 243277004966 uracil binding [chemical binding]; other site 243277004967 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 243277004968 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277004969 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 243277004970 nucleotide binding region [chemical binding]; other site 243277004971 ATP-binding site [chemical binding]; other site 243277004972 Double zinc ribbon; Region: DZR; pfam12773 243277004973 Predicted membrane protein [Function unknown]; Region: COG3212 243277004974 Peptidase propeptide and YPEB domain; Region: PepSY; cl15480 243277004975 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 243277004976 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277004977 active site 243277004978 phosphorylation site [posttranslational modification] 243277004979 intermolecular recognition site; other site 243277004980 dimerization interface [polypeptide binding]; other site 243277004981 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 243277004982 DNA binding site [nucleotide binding] 243277004983 sensor protein PhoQ; Provisional; Region: PRK10815 243277004984 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277004985 ATP binding site [chemical binding]; other site 243277004986 Mg2+ binding site [ion binding]; other site 243277004987 G-X-G motif; other site 243277004988 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 243277004989 5S rRNA interface [nucleotide binding]; other site 243277004990 CTC domain interface [polypeptide binding]; other site 243277004991 L16 interface [polypeptide binding]; other site 243277004992 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 243277004993 Ribosome recycling factor; Region: RRF_GI; pfam12614 243277004994 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277004995 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 243277004996 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 243277004997 dimerization interface [polypeptide binding]; other site 243277004998 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277004999 Protein of unknown function (DUF3103); Region: DUF3103; pfam11301 243277005000 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 243277005001 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 243277005002 motif II; other site 243277005003 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 243277005004 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 243277005005 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 243277005006 Secreted trypsin-like serine protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5640 243277005007 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cd00190 243277005008 cleavage site 243277005009 active site 243277005010 substrate binding sites [chemical binding]; other site 243277005011 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 243277005012 Collagenase; Region: Peptidase_M9; pfam01752 243277005013 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 243277005014 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 243277005015 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 243277005016 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277005017 active site 243277005018 phosphorylation site [posttranslational modification] 243277005019 intermolecular recognition site; other site 243277005020 dimerization interface [polypeptide binding]; other site 243277005021 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 243277005022 binding surface 243277005023 TPR motif; other site 243277005024 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 243277005025 Response regulator receiver domain; Region: Response_reg; pfam00072 243277005026 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277005027 active site 243277005028 phosphorylation site [posttranslational modification] 243277005029 intermolecular recognition site; other site 243277005030 dimerization interface [polypeptide binding]; other site 243277005031 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 243277005032 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 243277005033 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 243277005034 DNA binding residues [nucleotide binding] 243277005035 dimerization interface [polypeptide binding]; other site 243277005036 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 243277005037 substrate binding pocket [chemical binding]; other site 243277005038 membrane-bound complex binding site; other site 243277005039 hinge residues; other site 243277005040 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 243277005041 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl15306 243277005042 substrate binding pocket [chemical binding]; other site 243277005043 membrane-bound complex binding site; other site 243277005044 hinge residues; other site 243277005045 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 243277005046 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 243277005047 dimer interface [polypeptide binding]; other site 243277005048 phosphorylation site [posttranslational modification] 243277005049 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277005050 ATP binding site [chemical binding]; other site 243277005051 Mg2+ binding site [ion binding]; other site 243277005052 G-X-G motif; other site 243277005053 Response regulator receiver domain; Region: Response_reg; pfam00072 243277005054 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277005055 active site 243277005056 phosphorylation site [posttranslational modification] 243277005057 intermolecular recognition site; other site 243277005058 dimerization interface [polypeptide binding]; other site 243277005059 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 243277005060 putative binding surface; other site 243277005061 active site 243277005062 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 243277005063 MgtE intracellular N domain; Region: MgtE_N; cl15244 243277005064 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 243277005065 Divalent cation transporter; Region: MgtE; cl00786 243277005066 EamA-like transporter family; Region: EamA; cl01037 243277005067 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 243277005068 EamA-like transporter family; Region: EamA; cl01037 243277005069 Amino acid permease; Region: AA_permease; cl00524 243277005070 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 243277005071 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 243277005072 META domain; Region: META; cl01245 243277005073 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 243277005074 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 243277005075 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 243277005076 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277005077 putative PBP binding loops; other site 243277005078 dimer interface [polypeptide binding]; other site 243277005079 ABC-ATPase subunit interface; other site 243277005080 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 243277005081 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277005082 Walker A/P-loop; other site 243277005083 ATP binding site [chemical binding]; other site 243277005084 Q-loop/lid; other site 243277005085 ABC transporter signature motif; other site 243277005086 Walker B; other site 243277005087 D-loop; other site 243277005088 H-loop/switch region; other site 243277005089 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 243277005090 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 243277005091 active site 243277005092 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 243277005093 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 243277005094 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 243277005095 putative active site [active] 243277005096 catalytic site [active] 243277005097 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 243277005098 putative active site [active] 243277005099 catalytic site [active] 243277005100 cystathionine beta-lyase; Provisional; Region: PRK09028 243277005101 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 243277005102 homodimer interface [polypeptide binding]; other site 243277005103 substrate-cofactor binding pocket; other site 243277005104 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243277005105 catalytic residue [active] 243277005106 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 243277005107 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 243277005108 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 243277005109 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 243277005110 E3 interaction surface; other site 243277005111 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 243277005112 PspC domain; Region: PspC; cl00864 243277005113 phage shock protein C; Region: phageshock_pspC; TIGR02978 243277005114 Phage shock protein B; Region: PspB; cl05946 243277005115 phage shock protein A; Region: phageshock_pspA; TIGR02977 243277005116 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 243277005117 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 243277005118 Walker A motif; other site 243277005119 ATP binding site [chemical binding]; other site 243277005120 Walker B motif; other site 243277005121 arginine finger; other site 243277005122 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277005123 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 243277005124 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 243277005125 peptide binding site [polypeptide binding]; other site 243277005126 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapB; COG4168 243277005127 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277005128 dimer interface [polypeptide binding]; other site 243277005129 conserved gate region; other site 243277005130 putative PBP binding loops; other site 243277005131 ABC-ATPase subunit interface; other site 243277005132 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 243277005133 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 243277005134 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277005135 dimer interface [polypeptide binding]; other site 243277005136 conserved gate region; other site 243277005137 putative PBP binding loops; other site 243277005138 ABC-ATPase subunit interface; other site 243277005139 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 243277005140 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 243277005141 Walker A/P-loop; other site 243277005142 ATP binding site [chemical binding]; other site 243277005143 Q-loop/lid; other site 243277005144 ABC transporter signature motif; other site 243277005145 Walker B; other site 243277005146 D-loop; other site 243277005147 H-loop/switch region; other site 243277005148 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 243277005149 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 243277005150 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 243277005151 Walker A/P-loop; other site 243277005152 ATP binding site [chemical binding]; other site 243277005153 Q-loop/lid; other site 243277005154 ABC transporter signature motif; other site 243277005155 Walker B; other site 243277005156 D-loop; other site 243277005157 H-loop/switch region; other site 243277005158 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 243277005159 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 243277005160 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 243277005161 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 243277005162 DHHA2 domain; Region: DHHA2; pfam02833 243277005163 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 243277005164 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 243277005165 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 243277005166 catalytic site [active] 243277005167 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 243277005168 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 243277005169 molybdopterin cofactor binding site [chemical binding]; other site 243277005170 substrate binding site [chemical binding]; other site 243277005171 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 243277005172 molybdopterin cofactor binding site; other site 243277005173 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl09485 243277005174 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 243277005175 Periplasmic nitrate reductase protein NapE; Region: NapE; cl01848 243277005176 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 243277005177 Phosphate-starvation-inducible E; Region: PsiE; cl01264 243277005178 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 243277005179 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277005180 NAD(P) binding site [chemical binding]; other site 243277005181 active site 243277005182 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 243277005183 putative active site [active] 243277005184 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 243277005185 Intracellular septation protein A; Region: IspA; cl01098 243277005186 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 243277005187 YCII-related domain; Region: YCII; cl00999 243277005188 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 243277005189 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 243277005190 THF binding site; other site 243277005191 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 243277005192 substrate binding site [chemical binding]; other site 243277005193 THF binding site; other site 243277005194 zinc-binding site [ion binding]; other site 243277005195 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 243277005196 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277005197 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 243277005198 putative dimerization interface [polypeptide binding]; other site 243277005199 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 243277005200 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 243277005201 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 243277005202 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 243277005203 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 243277005204 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 243277005205 putative active site [active] 243277005206 heme pocket [chemical binding]; other site 243277005207 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 243277005208 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 243277005209 hypothetical protein; Provisional; Region: PRK01254 243277005210 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 243277005211 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 243277005212 LysE type translocator; Region: LysE; cl00565 243277005213 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 243277005214 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277005215 cell division protein MukB; Provisional; Region: mukB; PRK04863 243277005216 MukB N-terminal; Region: MukB; pfam04310 243277005217 MukE-like family; Region: MukE; cl11471 243277005218 KicB killing factor; Region: KicB; cl11468 243277005219 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1, 4-benzoquinol methylase [Coenzyme metabolism]; Region: UbiG; COG2227 243277005220 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 243277005221 S-adenosylmethionine binding site [chemical binding]; other site 243277005222 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 243277005223 putative active site [active] 243277005224 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 243277005225 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277005226 active site 243277005227 phosphorylation site [posttranslational modification] 243277005228 intermolecular recognition site; other site 243277005229 dimerization interface [polypeptide binding]; other site 243277005230 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 243277005231 DNA binding site [nucleotide binding] 243277005232 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 243277005233 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 243277005234 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 243277005235 DNA binding site [nucleotide binding] 243277005236 domain linker motif; other site 243277005237 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 243277005238 dimerization interface [polypeptide binding]; other site 243277005239 ligand binding site [chemical binding]; other site 243277005240 TfoX N-terminal domain; Region: TfoX_N; cl01167 243277005241 TfoX N-terminal domain; Region: TfoX_N; cl01167 243277005242 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 243277005243 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 243277005244 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 243277005245 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 243277005246 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 243277005247 glycogen synthase; Provisional; Region: glgA; PRK00654 243277005248 ADP-binding pocket [chemical binding]; other site 243277005249 homodimer interface [polypeptide binding]; other site 243277005250 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 243277005251 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 243277005252 ligand binding site; other site 243277005253 oligomer interface; other site 243277005254 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 243277005255 N-terminal domain interface [polypeptide binding]; other site 243277005256 sulfate 1 binding site; other site 243277005257 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 243277005258 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 243277005259 active site 243277005260 interdomain interaction site; other site 243277005261 putative metal-binding site [ion binding]; other site 243277005262 nucleotide binding site [chemical binding]; other site 243277005263 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 243277005264 domain I; other site 243277005265 DNA binding groove [nucleotide binding] 243277005266 phosphate binding site [ion binding]; other site 243277005267 domain II; other site 243277005268 domain III; other site 243277005269 nucleotide binding site [chemical binding]; other site 243277005270 catalytic site [active] 243277005271 domain IV; other site 243277005272 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 243277005273 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 243277005274 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 243277005275 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 243277005276 Protein of unknown function (DUF2498); Region: DUF2498; cl11671 243277005277 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 243277005278 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 243277005279 hinge; other site 243277005280 active site 243277005281 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl01006 243277005282 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 243277005283 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 243277005284 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 243277005285 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 243277005286 rRNA binding site [nucleotide binding]; other site 243277005287 predicted 30S ribosome binding site; other site 243277005288 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277005289 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 243277005290 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 243277005291 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 243277005292 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 243277005293 active site 243277005294 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 243277005295 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 243277005296 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277005297 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 243277005298 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 243277005299 Protein of unknown function (DUF1496); Region: DUF1496; pfam07383 243277005300 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 243277005301 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 243277005302 tetramerization interface [polypeptide binding]; other site 243277005303 NAD(P) binding site [chemical binding]; other site 243277005304 catalytic residues [active] 243277005305 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 243277005306 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277005307 Surface antigen; Region: Bac_surface_Ag; cl03097 243277005308 Mechanosensitive ion channel; Region: MS_channel; pfam00924 243277005309 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 243277005310 Paraquat-inducible protein A; Region: PqiA; pfam04403 243277005311 Paraquat-inducible protein A; Region: PqiA; pfam04403 243277005312 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 243277005313 mce related protein; Region: MCE; cl15431 243277005314 mce related protein; Region: MCE; cl15431 243277005315 mce related protein; Region: MCE; cl15431 243277005316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 243277005317 Protein of unknown function (DUF330); Region: DUF330; cl01135 243277005318 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 243277005319 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 243277005320 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 243277005321 lipoyl-biotinyl attachment site [posttranslational modification]; other site 243277005322 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 243277005323 integrase; Provisional; Region: PRK09692 243277005324 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 243277005325 active site 243277005326 Int/Topo IB signature motif; other site 243277005327 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277005328 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 243277005329 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 243277005330 ATP binding site [chemical binding]; other site 243277005331 putative Mg++ binding site [ion binding]; other site 243277005332 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 243277005333 nucleotide binding region [chemical binding]; other site 243277005334 ATP-binding site [chemical binding]; other site 243277005335 Restriction endonuclease; Region: Mrr_cat; cl00747 243277005336 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 243277005337 ligand binding site [chemical binding]; other site 243277005338 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 243277005339 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 243277005340 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 243277005341 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 243277005342 ATP binding site [chemical binding]; other site 243277005343 putative Mg++ binding site [ion binding]; other site 243277005344 Protein of unknown function DUF262; Region: DUF262; cl14890 243277005345 Protein of unknown function DUF262; Region: DUF262; cl14890 243277005346 Protein of unknown function DUF262; Region: DUF262; cl14890 243277005347 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 243277005348 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 243277005349 HsdM N-terminal domain; Region: HsdM_N; pfam12161 243277005350 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 243277005351 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; cl12011 243277005352 Predicted transcriptional regulator [Transcription]; Region: COG2378 243277005353 mutatrotase, YjhT family; Region: muta_rot_YjhT; TIGR03547 243277005354 Kelch motif; Region: Kelch_1; cl02701 243277005355 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 243277005356 Kelch motif; Region: Kelch_1; cl02701 243277005357 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 243277005358 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 243277005359 putative active site [active] 243277005360 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 243277005361 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 243277005362 catalytic residue [active] 243277005363 DctM-like transporters; Region: DctM; pfam06808 243277005364 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 243277005365 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 243277005366 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 243277005367 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 243277005368 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 243277005369 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 243277005370 putative active site cavity [active] 243277005371 N-acetylmannosamine kinase; Provisional; Region: PRK05082 243277005372 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 243277005373 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 243277005374 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 243277005375 active site 243277005376 dimer interface [polypeptide binding]; other site 243277005377 Neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: NanH; COG4409 243277005378 Vibrio cholerae sialidase, lectin insertion; Region: Sial-lect-inser; pfam09264 243277005379 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 243277005380 Vibrio cholerae sialidase, lectin insertion; Region: Sial-lect-inser; pfam09264 243277005381 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 243277005382 Asp-box motif; other site 243277005383 catalytic site [active] 243277005384 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 243277005385 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 243277005386 MPN+ (JAMM) motif; other site 243277005387 Zinc-binding site [ion binding]; other site 243277005388 Protein of unknown function (DUF2787); Region: DUF2787; pfam10980 243277005389 putative transposase OrfB; Reviewed; Region: PHA02517 243277005390 Integrase core domain; Region: rve; cl01316 243277005391 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277005392 Mu-like prophage protein [General function prediction only]; Region: COG3941 243277005393 tape measure domain; Region: tape_meas_nterm; TIGR02675 243277005394 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; cl11546 243277005395 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 243277005396 Mor transcription activator family; Region: Mor; cl02360 243277005397 Mor transcription activator family; Region: Mor; cl02360 243277005398 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 243277005399 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277005400 Integrase core domain; Region: rve; cl01316 243277005401 NADH dehydrogenase subunit G; Validated; Region: PRK08166 243277005402 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 243277005403 non-specific DNA binding site [nucleotide binding]; other site 243277005404 salt bridge; other site 243277005405 sequence-specific DNA binding site [nucleotide binding]; other site 243277005406 Protein of unknown function (DUF2787); Region: DUF2787; pfam10980 243277005407 Protein of unknown function (DUF2787); Region: DUF2787; pfam10980 243277005408 Predicted GTPase [General function prediction only]; Region: COG3596 243277005409 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs); Region: Era_like; cd00880 243277005410 Switch I region; other site 243277005411 Switch II region; other site 243277005412 G3 box; other site 243277005413 G4 box; other site 243277005414 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 243277005415 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 243277005416 LabA_like proteins; Region: LabA; cd10911 243277005417 putative metal binding site [ion binding]; other site 243277005418 Protein of unknown function, DUF393; Region: DUF393; cl01136 243277005419 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 243277005420 DNA photolyase; Region: DNA_photolyase; pfam00875 243277005421 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 243277005422 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277005423 NAD(P) binding site [chemical binding]; other site 243277005424 active site 243277005425 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 243277005426 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 243277005427 GAF domain; Region: GAF; cl00853 243277005428 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 243277005429 Walker A motif; other site 243277005430 ATP binding site [chemical binding]; other site 243277005431 Walker B motif; other site 243277005432 arginine finger; other site 243277005433 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277005434 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 243277005435 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 243277005436 NAD(P) binding site [chemical binding]; other site 243277005437 catalytic residues [active] 243277005438 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 243277005439 active site 243277005440 phosphorylation site [posttranslational modification] 243277005441 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 243277005442 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 243277005443 P-loop; other site 243277005444 active site 243277005445 phosphorylation site [posttranslational modification] 243277005446 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 243277005447 active site 243277005448 phosphorylation site [posttranslational modification] 243277005449 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 243277005450 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 243277005451 P-loop; other site 243277005452 active site 243277005453 phosphorylation site [posttranslational modification] 243277005454 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 243277005455 P-loop; other site 243277005456 active site 243277005457 phosphorylation site [posttranslational modification] 243277005458 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 243277005459 regulatory protein interface [polypeptide binding]; other site 243277005460 active site 243277005461 regulatory phosphorylation site [posttranslational modification]; other site 243277005462 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 243277005463 active site 243277005464 phosphorylation site [posttranslational modification] 243277005465 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 243277005466 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 243277005467 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 243277005468 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 243277005469 active site 243277005470 phosphorylation site [posttranslational modification] 243277005471 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 243277005472 P-loop; other site 243277005473 active site 243277005474 phosphorylation site [posttranslational modification] 243277005475 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 243277005476 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 243277005477 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 243277005478 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 243277005479 Cache domain; Region: Cache_1; pfam02743 243277005480 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 243277005481 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 243277005482 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 243277005483 dimer interface [polypeptide binding]; other site 243277005484 phosphorylation site [posttranslational modification] 243277005485 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277005486 ATP binding site [chemical binding]; other site 243277005487 Mg2+ binding site [ion binding]; other site 243277005488 G-X-G motif; other site 243277005489 Response regulator receiver domain; Region: Response_reg; pfam00072 243277005490 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277005491 active site 243277005492 phosphorylation site [posttranslational modification] 243277005493 intermolecular recognition site; other site 243277005494 dimerization interface [polypeptide binding]; other site 243277005495 Uncharacterised protein family (UPF0149); Region: UPF0149; cl01173 243277005496 Quinolinate synthetase A protein; Region: NadA; cl00420 243277005497 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 243277005498 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 243277005499 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 243277005500 ligand binding site [chemical binding]; other site 243277005501 translocation protein TolB; Provisional; Region: tolB; PRK04792 243277005502 TolB amino-terminal domain; Region: TolB_N; cl00639 243277005503 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 243277005504 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 243277005505 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 243277005506 Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]; Region: TolA; COG3064 243277005507 Gram-negative bacterial tonB protein; Region: TonB; cl10048 243277005508 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 243277005509 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 243277005510 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 243277005511 active site 243277005512 Cyd operon protein YbgE (Cyd_oper_YbgE); Region: Cyd_oper_YbgE; cl11451 243277005513 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 243277005514 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 243277005515 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 243277005516 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 243277005517 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 243277005518 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 243277005519 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 243277005520 Walker A motif; other site 243277005521 ATP binding site [chemical binding]; other site 243277005522 Walker B motif; other site 243277005523 arginine finger; other site 243277005524 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 243277005525 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 243277005526 RuvA N terminal domain; Region: RuvA_N; pfam01330 243277005527 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 243277005528 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 243277005529 active site 243277005530 putative DNA-binding cleft [nucleotide binding]; other site 243277005531 dimer interface [polypeptide binding]; other site 243277005532 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 243277005533 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 243277005534 active site 243277005535 HIGH motif; other site 243277005536 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 243277005537 KMSKS motif; other site 243277005538 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 243277005539 tRNA binding surface [nucleotide binding]; other site 243277005540 anticodon binding site; other site 243277005541 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 243277005542 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 243277005543 substrate binding site [chemical binding]; other site 243277005544 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 243277005545 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 243277005546 putative active site [active] 243277005547 putative metal binding site [ion binding]; other site 243277005548 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 243277005549 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 243277005550 hypothetical protein; Provisional; Region: PRK02250 243277005551 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 243277005552 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 243277005553 trimer interface [polypeptide binding]; other site 243277005554 eyelet of channel; other site 243277005555 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 243277005556 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277005557 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277005558 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 243277005559 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 243277005560 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 243277005561 Protein of unknown function (DUF2496); Region: DUF2496; cl11670 243277005562 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 243277005563 dimerization interface [polypeptide binding]; other site 243277005564 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277005565 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277005566 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 243277005567 putative phosphate binding site [ion binding]; other site 243277005568 putative catalytic site [active] 243277005569 active site 243277005570 metal binding site A [ion binding]; metal-binding site 243277005571 DNA binding site [nucleotide binding] 243277005572 putative AP binding site [nucleotide binding]; other site 243277005573 putative metal binding site B [ion binding]; other site 243277005574 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 243277005575 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277005576 dimer interface [polypeptide binding]; other site 243277005577 conserved gate region; other site 243277005578 putative PBP binding loops; other site 243277005579 ABC-ATPase subunit interface; other site 243277005580 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 243277005581 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277005582 dimer interface [polypeptide binding]; other site 243277005583 conserved gate region; other site 243277005584 putative PBP binding loops; other site 243277005585 ABC-ATPase subunit interface; other site 243277005586 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 243277005587 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 243277005588 substrate binding pocket [chemical binding]; other site 243277005589 membrane-bound complex binding site; other site 243277005590 hinge residues; other site 243277005591 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 243277005592 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 243277005593 Walker A/P-loop; other site 243277005594 ATP binding site [chemical binding]; other site 243277005595 Q-loop/lid; other site 243277005596 ABC transporter signature motif; other site 243277005597 Walker B; other site 243277005598 D-loop; other site 243277005599 H-loop/switch region; other site 243277005600 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 243277005601 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 243277005602 Pyruvate formate lyase 1; Region: PFL1; cd01678 243277005603 coenzyme A binding site [chemical binding]; other site 243277005604 active site 243277005605 catalytic residues [active] 243277005606 glycine loop; other site 243277005607 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 243277005608 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 243277005609 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 243277005610 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277005611 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 243277005612 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 243277005613 FeS/SAM binding site; other site 243277005614 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 243277005615 YfbU domain; Region: YfbU; cl01137 243277005616 PrkA family serine protein kinase; Provisional; Region: PRK15455 243277005617 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277005618 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 243277005619 Uncharacterized conserved protein [Function unknown]; Region: COG2718 243277005620 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 243277005621 SpoVR family protein; Provisional; Region: PRK11767 243277005622 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 243277005623 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 243277005624 Ligand binding site; other site 243277005625 oligomer interface; other site 243277005626 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 243277005627 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 243277005628 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 243277005629 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 243277005630 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 243277005631 Walker A/P-loop; other site 243277005632 ATP binding site [chemical binding]; other site 243277005633 Q-loop/lid; other site 243277005634 ABC transporter signature motif; other site 243277005635 Walker B; other site 243277005636 D-loop; other site 243277005637 H-loop/switch region; other site 243277005638 ComEC family competence protein; Provisional; Region: PRK11539 243277005639 Competence protein; Region: Competence; cl00471 243277005640 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 243277005641 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 243277005642 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 243277005643 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 243277005644 FtsX-like permease family; Region: FtsX; pfam02687 243277005645 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 243277005646 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 243277005647 Walker A/P-loop; other site 243277005648 ATP binding site [chemical binding]; other site 243277005649 Q-loop/lid; other site 243277005650 ABC transporter signature motif; other site 243277005651 Walker B; other site 243277005652 D-loop; other site 243277005653 H-loop/switch region; other site 243277005654 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 243277005655 FtsX-like permease family; Region: FtsX; pfam02687 243277005656 PilZ domain; Region: PilZ; cl01260 243277005657 transcription-repair coupling factor; Provisional; Region: PRK10689 243277005658 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 243277005659 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 243277005660 ATP binding site [chemical binding]; other site 243277005661 putative Mg++ binding site [ion binding]; other site 243277005662 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 243277005663 nucleotide binding region [chemical binding]; other site 243277005664 ATP-binding site [chemical binding]; other site 243277005665 TRCF domain; Region: TRCF; cl04088 243277005666 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 243277005667 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 243277005668 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277005669 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 243277005670 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277005671 Uncharacterised protein family (UPF0227); Region: UPF0227; cl14886 243277005672 Phosphotransferase enzyme family; Region: APH; pfam01636 243277005673 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 243277005674 active site 243277005675 substrate binding site [chemical binding]; other site 243277005676 ATP binding site [chemical binding]; other site 243277005677 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 243277005678 TolB amino-terminal domain; Region: TolB_N; cl00639 243277005679 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 243277005680 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 243277005681 putative dimer interface [polypeptide binding]; other site 243277005682 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 243277005683 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 243277005684 nucleotide binding site/active site [active] 243277005685 HIT family signature motif; other site 243277005686 catalytic residue [active] 243277005687 CHASE3 domain; Region: CHASE3; cl05000 243277005688 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 243277005689 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277005690 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277005691 Domain of unknown function (DUF1887); Region: DUF1887; pfam09002 243277005692 fatty acid metabolism regulator; Provisional; Region: PRK04984 243277005693 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 243277005694 DNA-binding site [nucleotide binding]; DNA binding site 243277005695 FCD domain; Region: FCD; cl11656 243277005696 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 243277005697 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 243277005698 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 243277005699 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277005700 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 243277005701 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 243277005702 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277005703 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 243277005704 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 243277005705 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277005706 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 243277005707 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277005708 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 243277005709 substrate binding site [chemical binding]; other site 243277005710 dimerization interface [polypeptide binding]; other site 243277005711 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 243277005712 active site 243277005713 dinuclear metal binding site [ion binding]; other site 243277005714 dimerization interface [polypeptide binding]; other site 243277005715 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 243277005716 active site 243277005717 dimer interface [polypeptide binding]; other site 243277005718 tetratricopeptide repeat protein; Provisional; Region: PRK11788 243277005719 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 243277005720 TPR motif; other site 243277005721 binding surface 243277005722 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 243277005723 binding surface 243277005724 TPR motif; other site 243277005725 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 243277005726 binding surface 243277005727 TPR motif; other site 243277005728 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 243277005729 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 243277005730 IHF dimer interface [polypeptide binding]; other site 243277005731 IHF - DNA interface [nucleotide binding]; other site 243277005732 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 243277005733 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 243277005734 RNA binding site [nucleotide binding]; other site 243277005735 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 243277005736 RNA binding site [nucleotide binding]; other site 243277005737 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 243277005738 RNA binding site [nucleotide binding]; other site 243277005739 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec4; cd05689 243277005740 RNA binding site [nucleotide binding]; other site 243277005741 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec5; cd05690 243277005742 RNA binding site [nucleotide binding]; other site 243277005743 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 243277005744 RNA binding site [nucleotide binding]; other site 243277005745 cytidylate kinase; Provisional; Region: cmk; PRK00023 243277005746 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 243277005747 CMP-binding site; other site 243277005748 The sites determining sugar specificity; other site 243277005749 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 243277005750 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 243277005751 periplasmic folding chaperone; Provisional; Region: PRK10788 243277005752 SurA N-terminal domain; Region: SurA_N; pfam09312 243277005753 PPIC-type PPIASE domain; Region: Rotamase; cl08278 243277005754 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 243277005755 IHF dimer interface [polypeptide binding]; other site 243277005756 IHF - DNA interface [nucleotide binding]; other site 243277005757 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 243277005758 Found in ATP-dependent protease La (LON); Region: LON; smart00464 243277005759 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 243277005760 Walker A motif; other site 243277005761 ATP binding site [chemical binding]; other site 243277005762 Walker B motif; other site 243277005763 arginine finger; other site 243277005764 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 243277005765 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 243277005766 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 243277005767 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 243277005768 Walker A motif; other site 243277005769 ATP binding site [chemical binding]; other site 243277005770 Walker B motif; other site 243277005771 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 243277005772 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 243277005773 oligomer interface [polypeptide binding]; other site 243277005774 active site residues [active] 243277005775 trigger factor; Provisional; Region: tig; PRK01490 243277005776 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 243277005777 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 243277005778 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 243277005779 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 243277005780 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 243277005781 dimer interface [polypeptide binding]; other site 243277005782 phosphorylation site [posttranslational modification] 243277005783 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277005784 ATP binding site [chemical binding]; other site 243277005785 Mg2+ binding site [ion binding]; other site 243277005786 G-X-G motif; other site 243277005787 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 243277005788 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277005789 active site 243277005790 phosphorylation site [posttranslational modification] 243277005791 intermolecular recognition site; other site 243277005792 dimerization interface [polypeptide binding]; other site 243277005793 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 243277005794 Walker A motif; other site 243277005795 ATP binding site [chemical binding]; other site 243277005796 Walker B motif; other site 243277005797 arginine finger; other site 243277005798 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277005799 DctM-like transporters; Region: DctM; pfam06808 243277005800 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 243277005801 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 243277005802 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 243277005803 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 243277005804 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 243277005805 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 243277005806 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 243277005807 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277005808 metal binding site [ion binding]; metal-binding site 243277005809 active site 243277005810 I-site; other site 243277005811 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 243277005812 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 243277005813 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 243277005814 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 243277005815 putative acyl-acceptor binding pocket; other site 243277005816 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 243277005817 active site 243277005818 LysE type translocator; Region: LysE; cl00565 243277005819 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 243277005820 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 243277005821 OpgC protein; Region: OpgC_C; cl00792 243277005822 Acyltransferase family; Region: Acyl_transf_3; pfam01757 243277005823 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 243277005824 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 243277005825 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 243277005826 homodimer interface [polypeptide binding]; other site 243277005827 NADP binding site [chemical binding]; other site 243277005828 substrate binding site [chemical binding]; other site 243277005829 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 243277005830 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 243277005831 substrate binding pocket [chemical binding]; other site 243277005832 active site 243277005833 iron coordination sites [ion binding]; other site 243277005834 hypothetical protein; Provisional; Region: PRK07190 243277005835 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277005836 Transcriptional regulator [Transcription]; Region: LysR; COG0583 243277005837 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277005838 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 243277005839 putative effector binding pocket; other site 243277005840 dimerization interface [polypeptide binding]; other site 243277005841 Pyoverdine/dityrosine biosynthesis protein [Secondary metabolites biosynthesis, transport, and catabolism]; Region: DIT1; COG3207 243277005842 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 243277005843 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 243277005844 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 243277005845 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 243277005846 molybdopterin cofactor binding site [chemical binding]; other site 243277005847 substrate binding site [chemical binding]; other site 243277005848 The MopB_CT_DMSOR-like CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-like; cd02777 243277005849 molybdopterin cofactor binding site; other site 243277005850 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 243277005851 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl09485 243277005852 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 243277005853 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 243277005854 chitin/cellulose binding site [chemical binding]; other site 243277005855 N-acetylglucosamine-binding protein A; Reviewed; Region: PRK13211 243277005856 GH18 domain of Chitinase D (ChiD). ChiD, a chitinase found in Bacillus circulans, hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine in chitin and chitodextrins. The domain architecture of ChiD includes a catalytic glycosyl hydrolase family 18; Region: GH18_chitinase_D-like; cd02871 243277005857 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 243277005858 putative active site [active] 243277005859 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 243277005860 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 243277005861 Nucleoside recognition; Region: Gate; cl00486 243277005862 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 243277005863 transcriptional activator TtdR; Provisional; Region: PRK09801 243277005864 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277005865 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 243277005866 putative effector binding pocket; other site 243277005867 dimerization interface [polypeptide binding]; other site 243277005868 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 243277005869 lytic murein transglycosylase; Region: MltB_2; TIGR02283 243277005870 YcgL domain; Region: YcgL; cl01189 243277005871 septum formation inhibitor; Reviewed; Region: minC; PRK04804 243277005872 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 243277005873 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 243277005874 cell division inhibitor MinD; Provisional; Region: PRK10818 243277005875 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 243277005876 Switch I; other site 243277005877 Switch II; other site 243277005878 Septum formation topological specificity factor MinE; Region: MinE; cl00538 243277005879 Uncharacterized lipoprotein NlpE involved in copper resistance; Region: NlpE; cl01138 243277005880 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 243277005881 Tim44-like domain; Region: Tim44; cl09208 243277005882 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 243277005883 lysophospholipid transporter LplT; Provisional; Region: PRK11195 243277005884 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 243277005885 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 243277005886 putative acyl-acceptor binding pocket; other site 243277005887 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 243277005888 dimerization interface [polypeptide binding]; other site 243277005889 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277005890 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277005891 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 243277005892 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 243277005893 non-specific DNA binding site [nucleotide binding]; other site 243277005894 salt bridge; other site 243277005895 sequence-specific DNA binding site [nucleotide binding]; other site 243277005896 Cupin domain; Region: Cupin_2; cl09118 243277005897 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 243277005898 Benzoate membrane transport protein; Region: BenE; cl15432 243277005899 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 243277005900 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 243277005901 O-succinylbenzoate synthase; Provisional; Region: PRK05105 243277005902 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 243277005903 active site 243277005904 dihydroxynaphthoic acid synthetase; Validated; Region: PRK07396 243277005905 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 243277005906 substrate binding site [chemical binding]; other site 243277005907 oxyanion hole (OAH) forming residues; other site 243277005908 trimer interface [polypeptide binding]; other site 243277005909 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 243277005910 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 243277005911 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 243277005912 dimer interface [polypeptide binding]; other site 243277005913 tetramer interface [polypeptide binding]; other site 243277005914 PYR/PP interface [polypeptide binding]; other site 243277005915 TPP binding site [chemical binding]; other site 243277005916 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 243277005917 TPP-binding site; other site 243277005918 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 243277005919 chorismate binding enzyme; Region: Chorismate_bind; cl10555 243277005920 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 243277005921 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 243277005922 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243277005923 homodimer interface [polypeptide binding]; other site 243277005924 catalytic residue [active] 243277005925 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 243277005926 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 243277005927 DTW domain; Region: DTW; cl01221 243277005928 Rhomboid family; Region: Rhomboid; cl11446 243277005929 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 243277005930 Peptidase M3-like family, a zincin metallopeptidase, includes M3 and M32 families; Region: M3_like; cd06258 243277005931 active site 243277005932 Zn binding site [ion binding]; other site 243277005933 ribonuclease D; Region: rnd; TIGR01388 243277005934 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 243277005935 putative active site [active] 243277005936 catalytic site [active] 243277005937 putative substrate binding site [chemical binding]; other site 243277005938 HRDC domain; Region: HRDC; cl02578 243277005939 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 243277005940 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 243277005941 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 243277005942 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 243277005943 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 243277005944 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 243277005945 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 243277005946 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 243277005947 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277005948 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277005949 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 243277005950 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 243277005951 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 243277005952 putative substrate binding site [chemical binding]; other site 243277005953 putative active site [active] 243277005954 putative cosubstrate binding site; other site 243277005955 catalytic site [active] 243277005956 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 243277005957 active site 243277005958 FMN binding site [chemical binding]; other site 243277005959 2,4-decadienoyl-CoA binding site; other site 243277005960 catalytic residue [active] 243277005961 4Fe-4S cluster binding site [ion binding]; other site 243277005962 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 243277005963 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277005964 protease 4; Provisional; Region: PRK10949 243277005965 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 243277005966 tandem repeat interface [polypeptide binding]; other site 243277005967 oligomer interface [polypeptide binding]; other site 243277005968 active site residues [active] 243277005969 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 243277005970 tandem repeat interface [polypeptide binding]; other site 243277005971 oligomer interface [polypeptide binding]; other site 243277005972 active site residues [active] 243277005973 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 243277005974 active site 243277005975 homodimer interface [polypeptide binding]; other site 243277005976 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 243277005977 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 243277005978 SelR domain; Region: SelR; cl00369 243277005979 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 243277005980 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 243277005981 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 243277005982 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 243277005983 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 243277005984 active site 243277005985 phosphate binding residues; other site 243277005986 catalytic residues [active] 243277005987 Protein of unknown function (DUF2860); Region: DUF2860; pfam11059 243277005988 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 243277005989 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 243277005990 S-adenosylmethionine binding site [chemical binding]; other site 243277005991 Protein of unknown function, DUF399; Region: DUF399; cl01139 243277005992 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 243277005993 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 243277005994 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277005995 active site 243277005996 phosphorylation site [posttranslational modification] 243277005997 intermolecular recognition site; other site 243277005998 dimerization interface [polypeptide binding]; other site 243277005999 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 243277006000 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 243277006001 pyruvate kinase; Provisional; Region: PRK05826 243277006002 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 243277006003 domain interfaces; other site 243277006004 active site 243277006005 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 243277006006 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 243277006007 active site 243277006008 nucleophile elbow; other site 243277006009 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 243277006010 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 243277006011 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 243277006012 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 243277006013 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 243277006014 active site turn [active] 243277006015 phosphorylation site [posttranslational modification] 243277006016 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 243277006017 active site 243277006018 DNA polymerase III subunit delta'; Validated; Region: PRK06090 243277006019 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277006020 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 243277006021 thymidylate kinase; Validated; Region: tmk; PRK00698 243277006022 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 243277006023 TMP-binding site; other site 243277006024 ATP-binding site [chemical binding]; other site 243277006025 YceG-like family; Region: YceG; pfam02618 243277006026 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 243277006027 dimerization interface [polypeptide binding]; other site 243277006028 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 243277006029 Aminotransferase class IV; Region: Aminotran_4; pfam01063 243277006030 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243277006031 catalytic residue [active] 243277006032 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08722 243277006033 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 243277006034 dimer interface [polypeptide binding]; other site 243277006035 active site 243277006036 Phosphopantetheine attachment site; Region: PP-binding; cl09936 243277006037 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 243277006038 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 243277006039 NAD(P) binding site [chemical binding]; other site 243277006040 homotetramer interface [polypeptide binding]; other site 243277006041 homodimer interface [polypeptide binding]; other site 243277006042 active site 243277006043 Acyl transferase domain; Region: Acyl_transf_1; cl08282 243277006044 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 243277006045 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 243277006046 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 243277006047 dimer interface [polypeptide binding]; other site 243277006048 active site 243277006049 CoA binding pocket [chemical binding]; other site 243277006050 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 243277006051 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 243277006052 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 243277006053 Maf-like protein; Region: Maf; pfam02545 243277006054 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 243277006055 active site 243277006056 dimer interface [polypeptide binding]; other site 243277006057 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 243277006058 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 243277006059 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 243277006060 active site 243277006061 ribonuclease E; Reviewed; Region: rne; PRK10811 243277006062 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 243277006063 homodimer interface [polypeptide binding]; other site 243277006064 oligonucleotide binding site [chemical binding]; other site 243277006065 ribonuclease E; Reviewed; Region: rne; PRK10811 243277006066 ribonuclease E; Reviewed; Region: rne; PRK10811 243277006067 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 243277006068 Permease family; Region: Xan_ur_permease; cl00967 243277006069 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 243277006070 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 243277006071 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 243277006072 putative catalytic cysteine [active] 243277006073 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 243277006074 putative active site [active] 243277006075 metal binding site [ion binding]; metal-binding site 243277006076 MarC family integral membrane protein; Region: MarC; cl00919 243277006077 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 243277006078 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277006079 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 243277006080 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 243277006081 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 243277006082 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 243277006083 Nucleoid-associated protein [General function prediction only]; Region: COG3081 243277006084 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 243277006085 Protein of unknown function (DUF1414); Region: DUF1414; cl01175 243277006086 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 243277006087 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 243277006088 Sulfatase; Region: Sulfatase; cl10460 243277006089 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 243277006090 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 243277006091 DNA topoisomerase III; Provisional; Region: PRK07726 243277006092 active site 243277006093 putative interdomain interaction site [polypeptide binding]; other site 243277006094 putative metal-binding site [ion binding]; other site 243277006095 putative nucleotide binding site [chemical binding]; other site 243277006096 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 243277006097 domain I; other site 243277006098 DNA binding groove [nucleotide binding] 243277006099 phosphate binding site [ion binding]; other site 243277006100 domain II; other site 243277006101 domain III; other site 243277006102 nucleotide binding site [chemical binding]; other site 243277006103 catalytic site [active] 243277006104 domain IV; other site 243277006105 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 243277006106 putative GSH binding site [chemical binding]; other site 243277006107 catalytic residues [active] 243277006108 superoxide dismutase; Provisional; Region: PRK10543 243277006109 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 243277006110 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 243277006111 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 243277006112 classical (c) SDRs; Region: SDR_c; cd05233 243277006113 NAD(P) binding site [chemical binding]; other site 243277006114 active site 243277006115 VacJ like lipoprotein; Region: VacJ; cl01073 243277006116 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 243277006117 catalytic residues [active] 243277006118 central insert; other site 243277006119 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 243277006120 CcmE; Region: CcmE; cl00994 243277006121 Heme exporter protein D (CcmD); Region: CcmD; cl11475 243277006122 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 243277006123 CcmB protein; Region: CcmB; cl01016 243277006124 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 243277006125 CcmA, the ATP-binding component of the bacterial CcmAB transporter. The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE...; Region: ABC_CcmA_heme_exporter; cd03231 243277006126 Walker A/P-loop; other site 243277006127 ATP binding site [chemical binding]; other site 243277006128 Q-loop/lid; other site 243277006129 ABC transporter signature motif; other site 243277006130 Walker B; other site 243277006131 D-loop; other site 243277006132 H-loop/switch region; other site 243277006133 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 243277006134 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 243277006135 putative CheA interaction surface; other site 243277006136 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 243277006137 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 243277006138 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 243277006139 Magnesium ion binding site [ion binding]; other site 243277006140 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 243277006141 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277006142 active site 243277006143 phosphorylation site [posttranslational modification] 243277006144 intermolecular recognition site; other site 243277006145 CheB methylesterase; Region: CheB_methylest; pfam01339 243277006146 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 243277006147 putative binding surface; other site 243277006148 active site 243277006149 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 243277006150 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277006151 ATP binding site [chemical binding]; other site 243277006152 Mg2+ binding site [ion binding]; other site 243277006153 G-X-G motif; other site 243277006154 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 243277006155 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 243277006156 Response regulator receiver domain; Region: Response_reg; pfam00072 243277006157 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277006158 active site 243277006159 phosphorylation site [posttranslational modification] 243277006160 intermolecular recognition site; other site 243277006161 dimerization interface [polypeptide binding]; other site 243277006162 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 243277006163 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 243277006164 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 243277006165 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 243277006166 DNA binding residues [nucleotide binding] 243277006167 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277006168 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 243277006169 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 243277006170 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 243277006171 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277006172 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 243277006173 FHIPEP family; Region: FHIPEP; pfam00771 243277006174 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 243277006175 catalytic core [active] 243277006176 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 243277006177 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 243277006178 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 243277006179 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 243277006180 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_4; cd07268 243277006181 putative metal binding site [ion binding]; other site 243277006182 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 243277006183 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 243277006184 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 243277006185 active site 243277006186 HIGH motif; other site 243277006187 KMSK motif region; other site 243277006188 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 243277006189 tRNA binding surface [nucleotide binding]; other site 243277006190 anticodon binding site; other site 243277006191 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 243277006192 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277006193 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 243277006194 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 243277006195 G1 box; other site 243277006196 GTP/Mg2+ binding site [chemical binding]; other site 243277006197 Switch I region; other site 243277006198 G2 box; other site 243277006199 G3 box; other site 243277006200 Switch II region; other site 243277006201 G4 box; other site 243277006202 G5 box; other site 243277006203 Nucleoside recognition; Region: Gate; cl00486 243277006204 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 243277006205 Nucleoside recognition; Region: Gate; cl00486 243277006206 FeoA domain; Region: FeoA; cl00838 243277006207 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 243277006208 Helix-turn-helix domain; Region: HTH_18; pfam12833 243277006209 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 243277006210 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 243277006211 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 243277006212 metal binding site [ion binding]; metal-binding site 243277006213 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 243277006214 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 243277006215 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 243277006216 dimer interface [polypeptide binding]; other site 243277006217 putative PBP binding regions; other site 243277006218 ABC-ATPase subunit interface; other site 243277006219 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 243277006220 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277006221 CoA-ligase; Region: Ligase_CoA; pfam00549 243277006222 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 243277006223 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 243277006224 CoA-ligase; Region: Ligase_CoA; pfam00549 243277006225 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 243277006226 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 243277006227 E3 interaction surface; other site 243277006228 lipoyl attachment site [posttranslational modification]; other site 243277006229 e3 binding domain; Region: E3_binding; pfam02817 243277006230 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 243277006231 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 243277006232 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 243277006233 TPP-binding site [chemical binding]; other site 243277006234 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 243277006235 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 243277006236 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 243277006237 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277006238 domain; Region: Succ_DH_flav_C; pfam02910 243277006239 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 243277006240 SdhC subunit interface [polypeptide binding]; other site 243277006241 proximal heme binding site [chemical binding]; other site 243277006242 cardiolipin binding site; other site 243277006243 Iron-sulfur protein interface; other site 243277006244 proximal quinone binding site [chemical binding]; other site 243277006245 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 243277006246 Iron-sulfur protein interface; other site 243277006247 proximal quinone binding site [chemical binding]; other site 243277006248 SdhD (CybS) interface [polypeptide binding]; other site 243277006249 proximal heme binding site [chemical binding]; other site 243277006250 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 243277006251 dimer interface [polypeptide binding]; other site 243277006252 Citrate synthase; Region: Citrate_synt; pfam00285 243277006253 active site 243277006254 citrylCoA binding site [chemical binding]; other site 243277006255 NADH binding [chemical binding]; other site 243277006256 cationic pore residues; other site 243277006257 oxalacetate/citrate binding site [chemical binding]; other site 243277006258 coenzyme A binding site [chemical binding]; other site 243277006259 catalytic triad [active] 243277006260 Uncharacterized conserved protein [Function unknown]; Region: COG0327 243277006261 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 243277006262 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 243277006263 phosphoglucomutase, alpha-D-glucose phosphate-specific; Region: pgm; TIGR01132 243277006264 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 243277006265 active site 243277006266 substrate binding site [chemical binding]; other site 243277006267 metal binding site [ion binding]; metal-binding site 243277006268 SeqA protein; Region: SeqA; cl11470 243277006269 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 243277006270 acyl-CoA esterase; Provisional; Region: PRK10673 243277006271 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 243277006272 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 243277006273 LrgB-like family; Region: LrgB; cl00596 243277006274 LrgA family; Region: LrgA; cl00608 243277006275 Transcriptional regulator [Transcription]; Region: LysR; COG0583 243277006276 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277006277 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 243277006278 putative dimerization interface [polypeptide binding]; other site 243277006279 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 243277006280 CoenzymeA binding site [chemical binding]; other site 243277006281 subunit interaction site [polypeptide binding]; other site 243277006282 PHB binding site; other site 243277006283 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 243277006284 metal binding site 2 [ion binding]; metal-binding site 243277006285 putative DNA binding helix; other site 243277006286 metal binding site 1 [ion binding]; metal-binding site 243277006287 dimer interface [polypeptide binding]; other site 243277006288 structural Zn2+ binding site [ion binding]; other site 243277006289 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 243277006290 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277006291 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 243277006292 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 243277006293 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277006294 Domain of unknown function (DUF3410); Region: DUF3410; pfam11890 243277006295 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; cl12011 243277006296 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 243277006297 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277006298 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 243277006299 YfcL protein; Region: YfcL; pfam08891 243277006300 Protein of unknown function, DUF462; Region: DUF462; cl01190 243277006301 Predicted membrane protein [Function unknown]; Region: COG2860 243277006302 UPF0126 domain; Region: UPF0126; pfam03458 243277006303 UPF0126 domain; Region: UPF0126; pfam03458 243277006304 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 243277006305 Tetramer interface [polypeptide binding]; other site 243277006306 active site 243277006307 FMN-binding site [chemical binding]; other site 243277006308 HemK family putative methylases; Region: hemK_fam; TIGR00536 243277006309 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 243277006310 S-adenosylmethionine binding site [chemical binding]; other site 243277006311 hypothetical protein; Provisional; Region: PRK04946 243277006312 Smr domain; Region: Smr; cl02619 243277006313 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 243277006314 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 243277006315 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 243277006316 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 243277006317 FliP family; Region: FliP; cl00593 243277006318 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 243277006319 flagellar motor switch protein; Validated; Region: fliN; PRK05698 243277006320 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 243277006321 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 243277006322 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 243277006323 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 243277006324 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 243277006325 Flagellar FliJ protein; Region: FliJ; cl09161 243277006326 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 243277006327 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 243277006328 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 243277006329 Walker A motif/ATP binding site; other site 243277006330 Walker B motif; other site 243277006331 flagellar assembly protein H; Validated; Region: fliH; PRK05687 243277006332 Flagellar assembly protein FliH; Region: FliH; pfam02108 243277006333 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 243277006334 MgtE intracellular N domain; Region: MgtE_N; cl15244 243277006335 FliG C-terminal domain; Region: FliG_C; pfam01706 243277006336 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 243277006337 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 243277006338 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 243277006339 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 243277006340 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 243277006341 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277006342 active site 243277006343 phosphorylation site [posttranslational modification] 243277006344 intermolecular recognition site; other site 243277006345 dimerization interface [polypeptide binding]; other site 243277006346 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 243277006347 Walker A motif; other site 243277006348 ATP binding site [chemical binding]; other site 243277006349 Walker B motif; other site 243277006350 arginine finger; other site 243277006351 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277006352 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 243277006353 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 243277006354 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 243277006355 dimer interface [polypeptide binding]; other site 243277006356 phosphorylation site [posttranslational modification] 243277006357 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277006358 ATP binding site [chemical binding]; other site 243277006359 G-X-G motif; other site 243277006360 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 243277006361 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 243277006362 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 243277006363 Walker A motif; other site 243277006364 ATP binding site [chemical binding]; other site 243277006365 Walker B motif; other site 243277006366 arginine finger; other site 243277006367 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277006368 Flagellar protein FliS; Region: FliS; cl00654 243277006369 Flagellar protein FliT; Region: FliT; cl05125 243277006370 flagellar capping protein; Validated; Region: fliD; PRK08724 243277006371 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 243277006372 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 243277006373 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 243277006374 FlaG protein; Region: FlaG; cl00591 243277006375 flagellin; Reviewed; Region: PRK08869 243277006376 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 243277006377 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 243277006378 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 243277006379 flagellin; Reviewed; Region: PRK08869 243277006380 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 243277006381 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 243277006382 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 243277006383 flagellin; Reviewed; Region: PRK08869 243277006384 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 243277006385 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 243277006386 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 243277006387 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 243277006388 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 243277006389 Protein of unknown function (DUF2956); Region: DUF2956; pfam11169 243277006390 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 243277006391 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 243277006392 ArsC family; Region: ArsC; pfam03960 243277006393 putative catalytic residues [active] 243277006394 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 243277006395 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 243277006396 metal binding site [ion binding]; metal-binding site 243277006397 dimer interface [polypeptide binding]; other site 243277006398 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 243277006399 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 243277006400 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 243277006401 lipoprotein; Provisional; Region: PRK11679 243277006402 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 243277006403 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 243277006404 dihydrodipicolinate synthase; Region: dapA; TIGR00674 243277006405 dimer interface [polypeptide binding]; other site 243277006406 active site 243277006407 catalytic residue [active] 243277006408 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 243277006409 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 243277006410 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 243277006411 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 243277006412 catalytic triad [active] 243277006413 Vibrio chemotaxis protein N terminus; Region: MCP_N; pfam05581 243277006414 Cache domain; Region: Cache_1; pfam02743 243277006415 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 243277006416 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277006417 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277006418 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 243277006419 Domain of unknown function DUF20; Region: UPF0118; cl00465 243277006420 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 243277006421 CPxP motif; other site 243277006422 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 243277006423 Peptidase family M48; Region: Peptidase_M48; cl12018 243277006424 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 243277006425 binding surface 243277006426 TPR motif; other site 243277006427 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 243277006428 ArsC family; Region: ArsC; pfam03960 243277006429 catalytic residues [active] 243277006430 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 243277006431 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 243277006432 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3249 243277006433 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 243277006434 Permease family; Region: Xan_ur_permease; cl00967 243277006435 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 243277006436 putative deacylase active site [active] 243277006437 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 243277006438 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 243277006439 active site 243277006440 metal binding site [ion binding]; metal-binding site 243277006441 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 243277006442 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 243277006443 NeuB family; Region: NeuB; cl00496 243277006444 Uncharacterized conserved protein [Function unknown]; Region: COG2912 243277006445 hypothetical protein; Provisional; Region: PRK10941 243277006446 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 243277006447 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 243277006448 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 243277006449 peptide chain release factor 1; Validated; Region: prfA; PRK00591 243277006450 RF-1 domain; Region: RF-1; cl02875 243277006451 RF-1 domain; Region: RF-1; cl02875 243277006452 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 243277006453 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 243277006454 tRNA; other site 243277006455 putative tRNA binding site [nucleotide binding]; other site 243277006456 putative NADP binding site [chemical binding]; other site 243277006457 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 243277006458 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 243277006459 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 243277006460 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 243277006461 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 243277006462 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 243277006463 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 243277006464 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 243277006465 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 243277006466 putative active site [active] 243277006467 catalytic residue [active] 243277006468 GTP-binding protein YchF; Reviewed; Region: PRK09601 243277006469 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 243277006470 G1 box; other site 243277006471 GTP/Mg2+ binding site [chemical binding]; other site 243277006472 Switch I region; other site 243277006473 G2 box; other site 243277006474 Switch II region; other site 243277006475 G3 box; other site 243277006476 G4 box; other site 243277006477 G5 box; other site 243277006478 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 243277006479 flagellin; Reviewed; Region: PRK08869 243277006480 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 243277006481 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 243277006482 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 243277006483 flagellin; Reviewed; Region: PRK08869 243277006484 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 243277006485 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 243277006486 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 243277006487 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 243277006488 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 243277006489 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08871 243277006490 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 243277006491 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 243277006492 Rod binding protein; Region: Rod-binding; cl01626 243277006493 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 243277006494 Flagellar L-ring protein; Region: FlgH; cl00905 243277006495 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 243277006496 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 243277006497 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 243277006498 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 243277006499 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 243277006500 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 243277006501 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 243277006502 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 243277006503 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 243277006504 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 243277006505 Flagellar hook capping protein; Region: FlgD; cl04347 243277006506 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 243277006507 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 243277006508 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 243277006509 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 243277006510 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 243277006511 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 243277006512 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 243277006513 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; cl12011 243277006514 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 243277006515 Response regulator receiver domain; Region: Response_reg; pfam00072 243277006516 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277006517 active site 243277006518 phosphorylation site [posttranslational modification] 243277006519 intermolecular recognition site; other site 243277006520 dimerization interface [polypeptide binding]; other site 243277006521 SAF domain; Region: SAF; cl00555 243277006522 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 243277006523 FlgN protein; Region: FlgN; cl09176 243277006524 Protein of unknown function, DUF400; Region: DUF400; cl01141 243277006525 TolB amino-terminal domain; Region: TolB_N; cl00639 243277006526 Condensation domain; Region: Condensation; pfam00668 243277006527 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 243277006528 Nonribosomal peptide synthase; Region: NRPS; pfam08415 243277006529 Condensation domain; Region: Condensation; pfam00668 243277006530 Nonribosomal peptide synthase; Region: NRPS; pfam08415 243277006531 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05605 243277006532 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 243277006533 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 243277006534 acyl-CoA synthetase; Provisional; Region: PRK13388 243277006535 Condensation domain; Region: Condensation; pfam00668 243277006536 peptide synthase; Validated; Region: PRK05691 243277006537 Phosphopantetheine attachment site; Region: PP-binding; cl09936 243277006538 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 243277006539 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 243277006540 FAD binding pocket [chemical binding]; other site 243277006541 FAD binding motif [chemical binding]; other site 243277006542 phosphate binding motif [ion binding]; other site 243277006543 NAD binding pocket [chemical binding]; other site 243277006544 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 243277006545 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 243277006546 N-terminal plug; other site 243277006547 ligand-binding site [chemical binding]; other site 243277006548 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 243277006549 outer membrane protein A; Reviewed; Region: PRK10808 243277006550 Surface antigen; Region: Surface_Ag_2; cl01155 243277006551 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 243277006552 ligand binding site [chemical binding]; other site 243277006553 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 243277006554 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 243277006555 active site 243277006556 HIGH motif; other site 243277006557 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 243277006558 active site 243277006559 KMSKS motif; other site 243277006560 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 243277006561 copper exporting ATPase; Provisional; Region: copA; PRK10671 243277006562 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 243277006563 metal-binding site [ion binding] 243277006564 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 243277006565 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 243277006566 Protein of unknown function, DUF; Region: DUF411; cl01142 243277006567 Putative carbohydrate binding domain; Region: CHB_HEX; cl03918 243277006568 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 243277006569 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 243277006570 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i) a...; Region: GH20_Sm-chitobiase-like; cd06569 243277006571 active site 243277006572 C-terminal Early set domain associated with the catalytic domain of chitobiase (also called N-acetylglucosaminidase); Region: E_set_Chitobiase_C; cd02847 243277006573 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 243277006574 TraB family; Region: TraB; cl12050 243277006575 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 243277006576 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 243277006577 Smr domain; Region: Smr; cl02619 243277006578 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 243277006579 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 243277006580 RNA binding surface [nucleotide binding]; other site 243277006581 PseudoU_synth_RluF_like: Pseudouridine synthase, Escherichia coli RluF like. This group is comprised of bacterial proteins similar to Escherichia coli RluF. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluF; cd02554 243277006582 probable active site [active] 243277006583 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277006584 metal binding site [ion binding]; metal-binding site 243277006585 active site 243277006586 I-site; other site 243277006587 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 243277006588 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 243277006589 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 243277006590 dimerization interface [polypeptide binding]; other site 243277006591 putative ATP binding site [chemical binding]; other site 243277006592 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 243277006593 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 243277006594 active site 243277006595 substrate binding site [chemical binding]; other site 243277006596 cosubstrate binding site; other site 243277006597 catalytic site [active] 243277006598 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 243277006599 putative active site [active] 243277006600 putative dimer interface [polypeptide binding]; other site 243277006601 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 243277006602 dimer interface [polypeptide binding]; other site 243277006603 active site 243277006604 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 243277006605 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 243277006606 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 243277006607 active site 243277006608 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 243277006609 TIGR03503 family protein; Region: TIGR03503 243277006610 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 243277006611 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 243277006612 active site 243277006613 substrate binding site [chemical binding]; other site 243277006614 catalytic site [active] 243277006615 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 243277006616 RNA/DNA hybrid binding site [nucleotide binding]; other site 243277006617 active site 243277006618 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 243277006619 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; cl12011 243277006620 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 243277006621 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 243277006622 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 243277006623 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 243277006624 N-acetyl-D-glucosamine binding site [chemical binding]; other site 243277006625 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 243277006626 putative peptidoglycan binding site; other site 243277006627 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 243277006628 putative peptidoglycan binding site; other site 243277006629 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 243277006630 putative peptidoglycan binding site; other site 243277006631 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3021 243277006632 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 243277006633 putative catalytic site [active] 243277006634 putative phosphate binding site [ion binding]; other site 243277006635 putative metal binding site [ion binding]; other site 243277006636 Nitrogen regulatory protein P-II; Region: P-II; cl00412 243277006637 Phenolic acid decarboxylase (PAD); Region: PA_decarbox; cl01382 243277006638 Cytochrome c; Region: Cytochrom_C; cl11414 243277006639 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 243277006640 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 243277006641 Ligand Binding Site [chemical binding]; other site 243277006642 TilS substrate binding domain; Region: TilS; pfam09179 243277006643 B3/4 domain; Region: B3_4; cl11458 243277006644 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 243277006645 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 243277006646 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 243277006647 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 243277006648 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 243277006649 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 243277006650 generic binding surface II; other site 243277006651 generic binding surface I; other site 243277006652 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 243277006653 RNA/DNA hybrid binding site [nucleotide binding]; other site 243277006654 active site 243277006655 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 243277006656 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 243277006657 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 243277006658 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 243277006659 active site 243277006660 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 243277006661 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 243277006662 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 243277006663 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 243277006664 trimer interface [polypeptide binding]; other site 243277006665 active site 243277006666 UDP-GlcNAc binding site [chemical binding]; other site 243277006667 lipid binding site [chemical binding]; lipid-binding site 243277006668 periplasmic chaperone; Provisional; Region: PRK10780 243277006669 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 243277006670 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 243277006671 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 243277006672 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 243277006673 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 243277006674 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 243277006675 Surface antigen; Region: Bac_surface_Ag; cl03097 243277006676 zinc metallopeptidase RseP; Provisional; Region: PRK10779 243277006677 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 243277006678 active site 243277006679 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 243277006680 protein binding site [polypeptide binding]; other site 243277006681 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 243277006682 protein binding site [polypeptide binding]; other site 243277006683 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 243277006684 putative substrate binding region [chemical binding]; other site 243277006685 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 243277006686 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 243277006687 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 243277006688 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 243277006689 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 243277006690 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; cd00475 243277006691 catalytic residue [active] 243277006692 putative FPP diphosphate binding site; other site 243277006693 putative FPP binding hydrophobic cleft; other site 243277006694 dimer interface [polypeptide binding]; other site 243277006695 putative IPP diphosphate binding site; other site 243277006696 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 243277006697 hinge region; other site 243277006698 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 243277006699 putative nucleotide binding site [chemical binding]; other site 243277006700 uridine monophosphate binding site [chemical binding]; other site 243277006701 homohexameric interface [polypeptide binding]; other site 243277006702 elongation factor Ts; Provisional; Region: tsf; PRK09377 243277006703 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 243277006704 Elongation factor TS; Region: EF_TS; pfam00889 243277006705 Elongation factor TS; Region: EF_TS; pfam00889 243277006706 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 243277006707 rRNA interaction site [nucleotide binding]; other site 243277006708 S8 interaction site; other site 243277006709 putative laminin-1 binding site; other site 243277006710 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 243277006711 active site 243277006712 PII uridylyl-transferase; Provisional; Region: PRK05007 243277006713 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 243277006714 metal binding triad; other site 243277006715 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 243277006716 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 243277006717 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 243277006718 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 243277006719 Protein of unknown function (DUF3461); Region: DUF3461; cl10125 243277006720 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 243277006721 tetramer interfaces [polypeptide binding]; other site 243277006722 binuclear metal-binding site [ion binding]; other site 243277006723 thiamine monophosphate kinase; Provisional; Region: PRK05731 243277006724 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 243277006725 ATP binding site [chemical binding]; other site 243277006726 dimerization interface [polypeptide binding]; other site 243277006727 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 243277006728 putative RNA binding site [nucleotide binding]; other site 243277006729 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 243277006730 homopentamer interface [polypeptide binding]; other site 243277006731 active site 243277006732 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 243277006733 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 243277006734 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 243277006735 dimerization interface [polypeptide binding]; other site 243277006736 active site 243277006737 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 243277006738 Lumazine binding domain; Region: Lum_binding; pfam00677 243277006739 Lumazine binding domain; Region: Lum_binding; pfam00677 243277006740 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 243277006741 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 243277006742 catalytic motif [active] 243277006743 Zn binding site [ion binding]; other site 243277006744 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 243277006745 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 243277006746 ATP cone domain; Region: ATP-cone; pfam03477 243277006747 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 243277006748 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 243277006749 putative catalytic cysteine [active] 243277006750 gamma-glutamyl kinase; Provisional; Region: PRK05429 243277006751 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 243277006752 nucleotide binding site [chemical binding]; other site 243277006753 homotetrameric interface [polypeptide binding]; other site 243277006754 putative phosphate binding site [ion binding]; other site 243277006755 putative allosteric binding site; other site 243277006756 PUA domain; Region: PUA; cl00607 243277006757 Transcriptional regulator Crl; Region: Crl; cl11653 243277006758 Alpha/beta hydrolase of unknown function (DUF1100); Region: DUF1100; pfam06500 243277006759 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 243277006760 Permease family; Region: Xan_ur_permease; cl00967 243277006761 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 243277006762 metal binding site [ion binding]; metal-binding site 243277006763 dimer interface [polypeptide binding]; other site 243277006764 Protein of unknown function (DUF785); Region: DUF785; cl01682 243277006765 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 243277006766 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 243277006767 Predicted deacylase [General function prediction only]; Region: COG3608 243277006768 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 243277006769 putative active site [active] 243277006770 Zn binding site [ion binding]; other site 243277006771 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 243277006772 CHASE4 domain; Region: CHASE4; cl01308 243277006773 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277006774 metal binding site [ion binding]; metal-binding site 243277006775 active site 243277006776 I-site; other site 243277006777 Protein of unknown function (DUF2884); Region: DUF2884; cl08135 243277006778 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 243277006779 active site 243277006780 DNA polymerase IV; Validated; Region: PRK02406 243277006781 DNA binding site [nucleotide binding] 243277006782 Protein of unknown function (DUF539); Region: DUF539; cl01129 243277006783 ApbE family; Region: ApbE; cl00643 243277006784 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 243277006785 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 243277006786 FAD binding pocket [chemical binding]; other site 243277006787 FAD binding motif [chemical binding]; other site 243277006788 phosphate binding motif [ion binding]; other site 243277006789 beta-alpha-beta structure motif; other site 243277006790 NAD binding pocket [chemical binding]; other site 243277006791 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 243277006792 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 243277006793 FMN-binding domain; Region: FMN_bind; cl01081 243277006794 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 243277006795 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 243277006796 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 243277006797 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 243277006798 E3 interaction surface; other site 243277006799 lipoyl attachment site [posttranslational modification]; other site 243277006800 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 243277006801 BolA-like protein; Region: BolA; cl00386 243277006802 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 243277006803 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 243277006804 S-adenosylmethionine binding site [chemical binding]; other site 243277006805 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG3056 243277006806 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 243277006807 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 243277006808 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 243277006809 substrate binding site [chemical binding]; other site 243277006810 muropeptide transporter; Reviewed; Region: ampG; PRK11902 243277006811 muropeptide transporter; Validated; Region: ampG; PRK11010 243277006812 Transcriptional activator [Transcription]; Region: ChrR; COG3806 243277006813 Cupin domain; Region: Cupin_2; cl09118 243277006814 RNA polymerase sigma factor; Provisional; Region: PRK12531 243277006815 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 243277006816 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 243277006817 DNA binding residues [nucleotide binding] 243277006818 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 243277006819 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 243277006820 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 243277006821 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277006822 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 243277006823 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 243277006824 conserved cys residue [active] 243277006825 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 243277006826 Aminotransferase class-V; Region: Aminotran_5; pfam00266 243277006827 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 243277006828 catalytic residue [active] 243277006829 Fe-S metabolism associated domain; Region: SufE; cl00951 243277006830 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 243277006831 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 243277006832 putative ATP binding site [chemical binding]; other site 243277006833 putative substrate interface [chemical binding]; other site 243277006834 murein transglycosylase A; Provisional; Region: mltA; PRK11162 243277006835 MltA specific insert domain; Region: MltA; cl08398 243277006836 3D domain; Region: 3D; cl01439 243277006837 Protein of unknown function (DUF2850); Region: DUF2850; pfam11012 243277006838 N-acetylglutamate synthase; Validated; Region: PRK05279 243277006839 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 243277006840 putative feedback inhibition sensing region; other site 243277006841 putative nucleotide binding site [chemical binding]; other site 243277006842 putative substrate binding site [chemical binding]; other site 243277006843 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 243277006844 Coenzyme A binding pocket [chemical binding]; other site 243277006845 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 243277006846 Putative ATPase (DUF699); Region: DUF699; pfam05127 243277006847 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277006848 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 243277006849 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277006850 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277006851 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 243277006852 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; cl15476 243277006853 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 243277006854 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 243277006855 gating phenylalanine in ion channel; other site 243277006856 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 243277006857 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277006858 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 243277006859 putative dimerization interface [polypeptide binding]; other site 243277006860 YebG protein; Region: YebG; cl01217 243277006861 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 243277006862 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 243277006863 putative trimer interface [polypeptide binding]; other site 243277006864 putative CoA binding site [chemical binding]; other site 243277006865 NnrS protein; Region: NnrS; cl01258 243277006866 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 243277006867 Coenzyme A binding pocket [chemical binding]; other site 243277006868 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 243277006869 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 243277006870 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 243277006871 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 243277006872 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 243277006873 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 243277006874 putative active site pocket [active] 243277006875 dimerization interface [polypeptide binding]; other site 243277006876 putative catalytic residue [active] 243277006877 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 243277006878 dimer interface [polypeptide binding]; other site 243277006879 putative tRNA-binding site [nucleotide binding]; other site 243277006880 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 243277006881 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 243277006882 DNA binding site [nucleotide binding] 243277006883 domain linker motif; other site 243277006884 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 243277006885 dimerization interface (closed form) [polypeptide binding]; other site 243277006886 ligand binding site [chemical binding]; other site 243277006887 Chromate transporter; Region: Chromate_transp; pfam02417 243277006888 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 243277006889 Chromate transporter; Region: Chromate_transp; pfam02417 243277006890 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 243277006891 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 243277006892 Zn2+ binding site [ion binding]; other site 243277006893 Mg2+ binding site [ion binding]; other site 243277006894 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 243277006895 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 243277006896 elongation factor G; Reviewed; Region: PRK00007 243277006897 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so...; Region: EF-G; cd01886 243277006898 G1 box; other site 243277006899 putative GEF interaction site [polypeptide binding]; other site 243277006900 GTP/Mg2+ binding site [chemical binding]; other site 243277006901 Switch I region; other site 243277006902 G2 box; other site 243277006903 G3 box; other site 243277006904 Switch II region; other site 243277006905 G4 box; other site 243277006906 G5 box; other site 243277006907 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 243277006908 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 243277006909 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 243277006910 DNA repair protein RadA; Provisional; Region: PRK11823 243277006911 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 243277006912 Walker A motif/ATP binding site; other site 243277006913 ATP binding site [chemical binding]; other site 243277006914 Walker B motif; other site 243277006915 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 243277006916 PilZ domain; Region: PilZ; cl01260 243277006917 PilZ domain; Region: PilZ; cl01260 243277006918 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 243277006919 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 243277006920 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 243277006921 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 243277006922 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 243277006923 Sulfatase; Region: Sulfatase; cl10460 243277006924 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 243277006925 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 243277006926 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 243277006927 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 243277006928 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 243277006929 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 243277006930 intersubunit interface [polypeptide binding]; other site 243277006931 active site 243277006932 catalytic residue [active] 243277006933 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 243277006934 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 243277006935 Nucleoside recognition; Region: Gate; cl00486 243277006936 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 243277006937 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 243277006938 active site 243277006939 Protein of unknown function (DUF328); Region: DUF328; cl01143 243277006940 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 243277006941 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 243277006942 Uncharacterized conserved protein [Function unknown]; Region: COG3945 243277006943 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 243277006944 ligand binding site [chemical binding]; other site 243277006945 active site 243277006946 UGI interface [polypeptide binding]; other site 243277006947 catalytic site [active] 243277006948 endonuclease IV; Provisional; Region: PRK01060 243277006949 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 243277006950 AP (apurinic/apyrimidinic) site pocket; other site 243277006951 DNA interaction; other site 243277006952 Metal-binding active site; metal-binding site 243277006953 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 243277006954 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 243277006955 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 243277006956 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 243277006957 catalytic residue [active] 243277006958 homoserine kinase; Provisional; Region: PRK01212 243277006959 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 243277006960 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 243277006961 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 243277006962 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 243277006963 putative catalytic residues [active] 243277006964 putative nucleotide binding site [chemical binding]; other site 243277006965 putative aspartate binding site [chemical binding]; other site 243277006966 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 243277006967 dimer interface [polypeptide binding]; other site 243277006968 putative threonine allosteric regulatory site; other site 243277006969 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 243277006970 putative threonine allosteric regulatory site; other site 243277006971 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277006972 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 243277006973 Protein of unknown function, DUF481; Region: DUF481; cl01213 243277006974 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 243277006975 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 243277006976 two-component response regulator; Provisional; Region: PRK11173 243277006977 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277006978 active site 243277006979 phosphorylation site [posttranslational modification] 243277006980 intermolecular recognition site; other site 243277006981 dimerization interface [polypeptide binding]; other site 243277006982 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 243277006983 DNA binding site [nucleotide binding] 243277006984 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 243277006985 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 243277006986 putative active site [active] 243277006987 heme pocket [chemical binding]; other site 243277006988 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 243277006989 dimer interface [polypeptide binding]; other site 243277006990 phosphorylation site [posttranslational modification] 243277006991 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277006992 ATP binding site [chemical binding]; other site 243277006993 Mg2+ binding site [ion binding]; other site 243277006994 G-X-G motif; other site 243277006995 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277006996 active site 243277006997 phosphorylation site [posttranslational modification] 243277006998 intermolecular recognition site; other site 243277006999 dimerization interface [polypeptide binding]; other site 243277007000 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 243277007001 putative binding surface; other site 243277007002 active site 243277007003 PAS fold; Region: PAS_4; pfam08448 243277007004 PAS fold; Region: PAS_4; pfam08448 243277007005 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 243277007006 putative active site [active] 243277007007 heme pocket [chemical binding]; other site 243277007008 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277007009 metal binding site [ion binding]; metal-binding site 243277007010 active site 243277007011 I-site; other site 243277007012 radical SAM protein, TIGR01212 family; Region: TIGR01212 243277007013 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 243277007014 FeS/SAM binding site; other site 243277007015 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 243277007016 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 243277007017 active site 243277007018 dimer interface [polypeptide binding]; other site 243277007019 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 243277007020 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 243277007021 active site 243277007022 FMN binding site [chemical binding]; other site 243277007023 substrate binding site [chemical binding]; other site 243277007024 3Fe-4S cluster binding site [ion binding]; other site 243277007025 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 243277007026 domain interface; other site 243277007027 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 243277007028 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 243277007029 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 243277007030 active site 243277007031 dimer interface [polypeptide binding]; other site 243277007032 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 243277007033 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 243277007034 active site 243277007035 FMN binding site [chemical binding]; other site 243277007036 substrate binding site [chemical binding]; other site 243277007037 3Fe-4S cluster binding site [ion binding]; other site 243277007038 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 243277007039 domain interface; other site 243277007040 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 243277007041 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 243277007042 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277007043 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 243277007044 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 243277007045 5'-methylthioadenosine nucleosidase; Region: PLN02584 243277007046 CobD/Cbib protein; Region: CobD_Cbib; cl00561 243277007047 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 243277007048 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 243277007049 cobalamin binding residues [chemical binding]; other site 243277007050 putative BtuC binding residues; other site 243277007051 dimer interface [polypeptide binding]; other site 243277007052 hypothetical protein; Provisional; Region: PRK10578 243277007053 UPF0126 domain; Region: UPF0126; pfam03458 243277007054 UPF0126 domain; Region: UPF0126; pfam03458 243277007055 Transcriptional regulator [Transcription]; Region: LysR; COG0583 243277007056 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277007057 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 243277007058 dimerization interface [polypeptide binding]; other site 243277007059 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 243277007060 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 243277007061 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 243277007062 putative active site [active] 243277007063 putative NTP binding site [chemical binding]; other site 243277007064 putative nucleic acid binding site [nucleotide binding]; other site 243277007065 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 243277007066 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277007067 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277007068 Q-loop/lid; other site 243277007069 ABC transporter signature motif; other site 243277007070 Walker B; other site 243277007071 D-loop; other site 243277007072 H-loop/switch region; other site 243277007073 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 243277007074 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 243277007075 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 243277007076 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 243277007077 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 243277007078 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 243277007079 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 243277007080 IMP binding site; other site 243277007081 dimer interface [polypeptide binding]; other site 243277007082 interdomain contacts; other site 243277007083 partial ornithine binding site; other site 243277007084 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 243277007085 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 243277007086 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 243277007087 catalytic site [active] 243277007088 subunit interface [polypeptide binding]; other site 243277007089 dihydrodipicolinate reductase; Provisional; Region: PRK00048 243277007090 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277007091 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 243277007092 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 243277007093 active site 243277007094 8-oxo-dGMP binding site [chemical binding]; other site 243277007095 nudix motif; other site 243277007096 metal binding site [ion binding]; metal-binding site 243277007097 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 243277007098 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 243277007099 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 243277007100 nucleotide binding region [chemical binding]; other site 243277007101 ATP-binding site [chemical binding]; other site 243277007102 SEC-C motif; Region: SEC-C; pfam02810 243277007103 Protein of unknown function (DUF721); Region: DUF721; cl02324 243277007104 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 243277007105 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 243277007106 cell division protein FtsZ; Validated; Region: PRK09330 243277007107 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 243277007108 nucleotide binding site [chemical binding]; other site 243277007109 SulA interaction site; other site 243277007110 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 243277007111 Cell division protein FtsA; Region: FtsA; cl11496 243277007112 Cell division protein FtsA; Region: FtsA; cl11496 243277007113 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 243277007114 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 243277007115 Cell division protein FtsQ; Region: FtsQ; pfam03799 243277007116 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 243277007117 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 243277007118 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 243277007119 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 243277007120 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 243277007121 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 243277007122 active site 243277007123 homodimer interface [polypeptide binding]; other site 243277007124 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 243277007125 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK04663 243277007126 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277007127 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 243277007128 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 243277007129 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 243277007130 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 243277007131 Mg++ binding site [ion binding]; other site 243277007132 putative catalytic motif [active] 243277007133 putative substrate binding site [chemical binding]; other site 243277007134 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 243277007135 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 243277007136 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 243277007137 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 243277007138 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 243277007139 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 243277007140 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 243277007141 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 243277007142 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 243277007143 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 243277007144 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 243277007145 Septum formation initiator; Region: DivIC; cl11433 243277007146 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 243277007147 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; cl12011 243277007148 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 243277007149 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277007150 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277007151 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 243277007152 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 243277007153 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 243277007154 E3 interaction surface; other site 243277007155 lipoyl attachment site [posttranslational modification]; other site 243277007156 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 243277007157 E3 interaction surface; other site 243277007158 lipoyl attachment site [posttranslational modification]; other site 243277007159 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 243277007160 E3 interaction surface; other site 243277007161 lipoyl attachment site [posttranslational modification]; other site 243277007162 e3 binding domain; Region: E3_binding; pfam02817 243277007163 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 243277007164 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 243277007165 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 243277007166 dimer interface [polypeptide binding]; other site 243277007167 TPP-binding site [chemical binding]; other site 243277007168 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 243277007169 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 243277007170 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 243277007171 DNA-binding site [nucleotide binding]; DNA binding site 243277007172 FCD domain; Region: FCD; cl11656 243277007173 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 243277007174 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 243277007175 active site 243277007176 metal binding site [ion binding]; metal-binding site 243277007177 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 243277007178 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 243277007179 DHH family; Region: DHH; pfam01368 243277007180 DHHA1 domain; Region: DHHA1; pfam02272 243277007181 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 243277007182 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 243277007183 dimerization domain [polypeptide binding]; other site 243277007184 dimer interface [polypeptide binding]; other site 243277007185 catalytic residues [active] 243277007186 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 243277007187 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 243277007188 Int/Topo IB signature motif; other site 243277007189 active site 243277007190 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 243277007191 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 243277007192 substrate binding site [chemical binding]; other site 243277007193 amidase catalytic site [active] 243277007194 Zn binding residues [ion binding]; other site 243277007195 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 243277007196 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 243277007197 dimerization interface [polypeptide binding]; other site 243277007198 active site 243277007199 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 243277007200 Pilin (bacterial filament); Region: Pilin; pfam00114 243277007201 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 243277007202 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 243277007203 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 243277007204 Walker A motif; other site 243277007205 ATP binding site [chemical binding]; other site 243277007206 Walker B motif; other site 243277007207 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 243277007208 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 243277007209 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 243277007210 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 243277007211 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 243277007212 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 243277007213 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 243277007214 CoA-binding site [chemical binding]; other site 243277007215 ATP-binding [chemical binding]; other site 243277007216 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 243277007217 Domain of unknown function (DUF329); Region: DUF329; cl01144 243277007218 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 243277007219 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 243277007220 CAP-like domain; other site 243277007221 active site 243277007222 primary dimer interface [polypeptide binding]; other site 243277007223 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 243277007224 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 243277007225 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277007226 ATP binding site [chemical binding]; other site 243277007227 Mg2+ binding site [ion binding]; other site 243277007228 G-X-G motif; other site 243277007229 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 243277007230 anchoring element; other site 243277007231 dimer interface [polypeptide binding]; other site 243277007232 ATP binding site [chemical binding]; other site 243277007233 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 243277007234 active site 243277007235 metal binding site [ion binding]; metal-binding site 243277007236 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 243277007237 Uncharacterised protein family (UPF0227); Region: UPF0227; cl14886 243277007238 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 243277007239 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 243277007240 active site 243277007241 metal binding site [ion binding]; metal-binding site 243277007242 hexamer interface [polypeptide binding]; other site 243277007243 Protein of unknown function (DUF1249); Region: DUF1249; cl01223 243277007244 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 243277007245 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 243277007246 dimer interface [polypeptide binding]; other site 243277007247 ADP-ribose binding site [chemical binding]; other site 243277007248 active site 243277007249 nudix motif; other site 243277007250 metal binding site [ion binding]; metal-binding site 243277007251 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 243277007252 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 243277007253 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 243277007254 metal binding triad; other site 243277007255 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 243277007256 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 243277007257 metal binding triad; other site 243277007258 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277007259 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277007260 Uncharacterized conserved protein [Function unknown]; Region: COG3025 243277007261 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 243277007262 putative active site [active] 243277007263 putative metal binding residues [ion binding]; other site 243277007264 signature motif; other site 243277007265 putative triphosphate binding site [ion binding]; other site 243277007266 CHAD domain; Region: CHAD; cl10506 243277007267 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 243277007268 Phosphate transporter family; Region: PHO4; cl00396 243277007269 Phosphate transporter family; Region: PHO4; cl00396 243277007270 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 243277007271 Bacterial SH3 domain; Region: SH3_3; cl02551 243277007272 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 243277007273 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 243277007274 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 243277007275 Walker A motif; other site 243277007276 ATP binding site [chemical binding]; other site 243277007277 Walker B motif; other site 243277007278 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 243277007279 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 243277007280 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 243277007281 active site 243277007282 NTP binding site [chemical binding]; other site 243277007283 metal binding triad [ion binding]; metal-binding site 243277007284 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 243277007285 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 243277007286 Zn2+ binding site [ion binding]; other site 243277007287 Mg2+ binding site [ion binding]; other site 243277007288 enolase; Provisional; Region: eno; PRK00077 243277007289 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 243277007290 dimer interface [polypeptide binding]; other site 243277007291 metal binding site [ion binding]; metal-binding site 243277007292 substrate binding pocket [chemical binding]; other site 243277007293 CTP synthetase; Validated; Region: pyrG; PRK05380 243277007294 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 243277007295 Catalytic site [active] 243277007296 active site 243277007297 UTP binding site [chemical binding]; other site 243277007298 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 243277007299 active site 243277007300 putative oxyanion hole; other site 243277007301 catalytic triad [active] 243277007302 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 243277007303 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 243277007304 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 243277007305 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 243277007306 synthetase active site [active] 243277007307 NTP binding site [chemical binding]; other site 243277007308 metal binding site [ion binding]; metal-binding site 243277007309 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 243277007310 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 243277007311 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 243277007312 TRAM domain; Region: TRAM; cl01282 243277007313 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; cl12011 243277007314 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 243277007315 S-adenosylmethionine binding site [chemical binding]; other site 243277007316 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 243277007317 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 243277007318 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 243277007319 dimerization interface [polypeptide binding]; other site 243277007320 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 243277007321 dimer interface [polypeptide binding]; other site 243277007322 phosphorylation site [posttranslational modification] 243277007323 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277007324 ATP binding site [chemical binding]; other site 243277007325 Mg2+ binding site [ion binding]; other site 243277007326 G-X-G motif; other site 243277007327 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 243277007328 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277007329 active site 243277007330 phosphorylation site [posttranslational modification] 243277007331 intermolecular recognition site; other site 243277007332 dimerization interface [polypeptide binding]; other site 243277007333 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 243277007334 putative binding surface; other site 243277007335 active site 243277007336 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 243277007337 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277007338 metal binding site [ion binding]; metal-binding site 243277007339 active site 243277007340 I-site; other site 243277007341 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 243277007342 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 243277007343 active site 243277007344 hydrophilic channel; other site 243277007345 dimerization interface [polypeptide binding]; other site 243277007346 catalytic residues [active] 243277007347 active site lid [active] 243277007348 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 243277007349 Recombination protein O N terminal; Region: RecO_N; pfam11967 243277007350 Recombination protein O C terminal; Region: RecO_C; pfam02565 243277007351 GTPase Era; Reviewed; Region: era; PRK00089 243277007352 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly...; Region: Era; cd04163 243277007353 G1 box; other site 243277007354 GTP/Mg2+ binding site [chemical binding]; other site 243277007355 Switch I region; other site 243277007356 G2 box; other site 243277007357 Switch II region; other site 243277007358 G3 box; other site 243277007359 G4 box; other site 243277007360 G5 box; other site 243277007361 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 243277007362 ribonuclease III; Reviewed; Region: rnc; PRK00102 243277007363 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 243277007364 dimerization interface [polypeptide binding]; other site 243277007365 active site 243277007366 metal binding site [ion binding]; metal-binding site 243277007367 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 243277007368 dsRNA binding site [nucleotide binding]; other site 243277007369 signal peptidase I; Provisional; Region: PRK10861 243277007370 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 243277007371 Catalytic site [active] 243277007372 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 243277007373 GTP-binding protein LepA; Provisional; Region: PRK05433 243277007374 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 243277007375 G1 box; other site 243277007376 putative GEF interaction site [polypeptide binding]; other site 243277007377 GTP/Mg2+ binding site [chemical binding]; other site 243277007378 Switch I region; other site 243277007379 G2 box; other site 243277007380 G3 box; other site 243277007381 Switch II region; other site 243277007382 G4 box; other site 243277007383 G5 box; other site 243277007384 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 243277007385 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 243277007386 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 243277007387 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 243277007388 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 243277007389 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 243277007390 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 243277007391 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 243277007392 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 243277007393 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 243277007394 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 243277007395 DNA binding residues [nucleotide binding] 243277007396 L-aspartate oxidase; Provisional; Region: PRK09077 243277007397 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277007398 domain; Region: Succ_DH_flav_C; pfam02910 243277007399 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 243277007400 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 243277007401 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 243277007402 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 243277007403 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 243277007404 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277007405 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 243277007406 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277007407 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 243277007408 Uncharacterised protein family (UPF0149); Region: UPF0149; cl01173 243277007409 Cell division protein ZapA; Region: ZapA; cl01146 243277007410 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 243277007411 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 243277007412 tetramer (dimer of dimers) interface [polypeptide binding]; other site 243277007413 active site 243277007414 dimer interface [polypeptide binding]; other site 243277007415 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 243277007416 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277007417 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 243277007418 L-serine binding site [chemical binding]; other site 243277007419 ACT domain interface; other site 243277007420 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 243277007421 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 243277007422 putative valine binding site [chemical binding]; other site 243277007423 dimer interface [polypeptide binding]; other site 243277007424 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 243277007425 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08979 243277007426 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 243277007427 PYR/PP interface [polypeptide binding]; other site 243277007428 dimer interface [polypeptide binding]; other site 243277007429 TPP binding site [chemical binding]; other site 243277007430 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 243277007431 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 243277007432 TPP-binding site [chemical binding]; other site 243277007433 dimer interface [polypeptide binding]; other site 243277007434 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 243277007435 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 243277007436 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 243277007437 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277007438 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 243277007439 putative substrate binding pocket [chemical binding]; other site 243277007440 putative dimerization interface [polypeptide binding]; other site 243277007441 conserved hypothetical protein; Region: MJ1255; TIGR00661 243277007442 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 243277007443 active site 243277007444 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 243277007445 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277007446 2-isopropylmalate synthase; Validated; Region: PRK00915 243277007447 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 243277007448 active site 243277007449 catalytic residues [active] 243277007450 metal binding site [ion binding]; metal-binding site 243277007451 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 243277007452 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 243277007453 tartrate dehydrogenase; Provisional; Region: PRK08194 243277007454 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 243277007455 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 243277007456 substrate binding site [chemical binding]; other site 243277007457 ligand binding site [chemical binding]; other site 243277007458 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 243277007459 substrate binding site [chemical binding]; other site 243277007460 Protein of unknown function, DUF547; Region: DUF547; pfam04784 243277007461 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 243277007462 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 243277007463 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 243277007464 Zn2+ binding site [ion binding]; other site 243277007465 Mg2+ binding site [ion binding]; other site 243277007466 RDD family; Region: RDD; cl00746 243277007467 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 243277007468 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 243277007469 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 243277007470 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 243277007471 multifunctional aminopeptidase A; Provisional; Region: PRK00913 243277007472 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 243277007473 interface (dimer of trimers) [polypeptide binding]; other site 243277007474 Substrate-binding/catalytic site; other site 243277007475 Zn-binding sites [ion binding]; other site 243277007476 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 243277007477 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 243277007478 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 243277007479 HIGH motif; other site 243277007480 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 243277007481 active site 243277007482 KMSKS motif; other site 243277007483 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 243277007484 tRNA binding surface [nucleotide binding]; other site 243277007485 anticodon binding site; other site 243277007486 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 243277007487 glycerate dehydrogenase; Provisional; Region: PRK06932 243277007488 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277007489 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 243277007490 active site 243277007491 ATP-dependent helicase HepA; Validated; Region: PRK04914 243277007492 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 243277007493 ATP binding site [chemical binding]; other site 243277007494 putative Mg++ binding site [ion binding]; other site 243277007495 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 243277007496 nucleotide binding region [chemical binding]; other site 243277007497 ATP-binding site [chemical binding]; other site 243277007498 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 243277007499 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 243277007500 putative active site [active] 243277007501 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277007502 ornithine carbamoyltransferase; Validated; Region: PRK02102 243277007503 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 243277007504 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277007505 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 243277007506 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 243277007507 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277007508 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 243277007509 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 243277007510 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 243277007511 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 243277007512 homotrimer interaction site [polypeptide binding]; other site 243277007513 putative active site [active] 243277007514 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 243277007515 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 243277007516 putative acyl-acceptor binding pocket; other site 243277007517 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 243277007518 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 243277007519 hinge; other site 243277007520 active site 243277007521 BolA-like protein; Region: BolA; cl00386 243277007522 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 243277007523 anti sigma factor interaction site; other site 243277007524 regulatory phosphorylation site [posttranslational modification]; other site 243277007525 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 243277007526 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 243277007527 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 243277007528 mce related protein; Region: MCE; cl15431 243277007529 Domain of unknown function DUF140; Region: DUF140; cl00510 243277007530 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 243277007531 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 243277007532 Walker A/P-loop; other site 243277007533 ATP binding site [chemical binding]; other site 243277007534 Q-loop/lid; other site 243277007535 ABC transporter signature motif; other site 243277007536 Walker B; other site 243277007537 D-loop; other site 243277007538 H-loop/switch region; other site 243277007539 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 243277007540 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 243277007541 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 243277007542 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 243277007543 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 243277007544 putative active site [active] 243277007545 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 243277007546 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 243277007547 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 243277007548 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 243277007549 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 243277007550 OstA-like protein; Region: OstA; cl00844 243277007551 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 243277007552 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 243277007553 Walker A/P-loop; other site 243277007554 ATP binding site [chemical binding]; other site 243277007555 Q-loop/lid; other site 243277007556 ABC transporter signature motif; other site 243277007557 Walker B; other site 243277007558 D-loop; other site 243277007559 H-loop/switch region; other site 243277007560 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 243277007561 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 243277007562 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 243277007563 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 243277007564 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 243277007565 30S subunit binding site; other site 243277007566 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 243277007567 active site 243277007568 phosphorylation site [posttranslational modification] 243277007569 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277007570 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 243277007571 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 243277007572 dimerization domain swap beta strand [polypeptide binding]; other site 243277007573 regulatory protein interface [polypeptide binding]; other site 243277007574 active site 243277007575 regulatory phosphorylation site [posttranslational modification]; other site 243277007576 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 243277007577 MgtE intracellular N domain; Region: MgtE_N; cl15244 243277007578 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 243277007579 Divalent cation transporter; Region: MgtE; cl00786 243277007580 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 243277007581 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 243277007582 Protein of unknown function (DUF615); Region: DUF615; cl01147 243277007583 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 243277007584 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277007585 Walker A/P-loop; other site 243277007586 ATP binding site [chemical binding]; other site 243277007587 Q-loop/lid; other site 243277007588 ABC transporter signature motif; other site 243277007589 Walker B; other site 243277007590 D-loop; other site 243277007591 H-loop/switch region; other site 243277007592 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 243277007593 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277007594 dimer interface [polypeptide binding]; other site 243277007595 conserved gate region; other site 243277007596 putative PBP binding loops; other site 243277007597 ABC-ATPase subunit interface; other site 243277007598 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277007599 dimer interface [polypeptide binding]; other site 243277007600 conserved gate region; other site 243277007601 putative PBP binding loops; other site 243277007602 ABC-ATPase subunit interface; other site 243277007603 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 243277007604 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 243277007605 aromatic acid decarboxylase; Validated; Region: PRK05920 243277007606 Flavoprotein; Region: Flavoprotein; cl08021 243277007607 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 243277007608 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 243277007609 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 243277007610 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 243277007611 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 243277007612 metal binding site [ion binding]; metal-binding site 243277007613 active site 243277007614 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 243277007615 dimer interface [polypeptide binding]; other site 243277007616 substrate binding site [chemical binding]; other site 243277007617 metal binding sites [ion binding]; metal-binding site 243277007618 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 243277007619 putative active site pocket [active] 243277007620 dimerization interface [polypeptide binding]; other site 243277007621 putative catalytic residue [active] 243277007622 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 243277007623 Family of unknown function (DUF490); Region: DUF490; pfam04357 243277007624 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 243277007625 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 243277007626 Surface antigen; Region: Bac_surface_Ag; cl03097 243277007627 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 243277007628 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; cl01158 243277007629 Protein of unknown function (DUF2607); Region: DUF2607; pfam10795 243277007630 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 243277007631 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 243277007632 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 243277007633 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 243277007634 Walker A/P-loop; other site 243277007635 ATP binding site [chemical binding]; other site 243277007636 Q-loop/lid; other site 243277007637 ABC transporter signature motif; other site 243277007638 Walker B; other site 243277007639 D-loop; other site 243277007640 H-loop/switch region; other site 243277007641 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 243277007642 FtsX-like permease family; Region: FtsX; pfam02687 243277007643 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 243277007644 Protein of unknown function (DUF2806); Region: DUF2806; cl12560 243277007645 Protein of unknown function (DUF2806); Region: DUF2806; cl12560 243277007646 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 important for the assimilation of...; Region: APSK; cd02027 243277007647 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 243277007648 ligand-binding site [chemical binding]; other site 243277007649 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 243277007650 CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which...; Region: CysN_ATPS; cd04166 243277007651 CysD dimerization site [polypeptide binding]; other site 243277007652 G1 box; other site 243277007653 putative GEF interaction site [polypeptide binding]; other site 243277007654 GTP/Mg2+ binding site [chemical binding]; other site 243277007655 Switch I region; other site 243277007656 G2 box; other site 243277007657 G3 box; other site 243277007658 Switch II region; other site 243277007659 G4 box; other site 243277007660 G5 box; other site 243277007661 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 243277007662 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 243277007663 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 243277007664 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 243277007665 Active Sites [active] 243277007666 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 243277007667 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 243277007668 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 243277007669 active site 243277007670 metal binding site [ion binding]; metal-binding site 243277007671 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 243277007672 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 243277007673 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 243277007674 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 243277007675 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 243277007676 ATP binding site [chemical binding]; other site 243277007677 Mg++ binding site [ion binding]; other site 243277007678 motif III; other site 243277007679 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 243277007680 nucleotide binding region [chemical binding]; other site 243277007681 ATP-binding site [chemical binding]; other site 243277007682 DbpA RNA binding domain; Region: DbpA; pfam03880 243277007683 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277007684 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 243277007685 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 243277007686 Coenzyme A binding pocket [chemical binding]; other site 243277007687 EamA-like transporter family; Region: EamA; cl01037 243277007688 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 243277007689 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 243277007690 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 243277007691 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 243277007692 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 243277007693 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 243277007694 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 243277007695 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 243277007696 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 243277007697 alphaNTD homodimer interface [polypeptide binding]; other site 243277007698 alphaNTD - beta interaction site [polypeptide binding]; other site 243277007699 alphaNTD - beta' interaction site [polypeptide binding]; other site 243277007700 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 243277007701 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 243277007702 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 243277007703 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 243277007704 RNA binding surface [nucleotide binding]; other site 243277007705 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 243277007706 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 243277007707 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 243277007708 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 243277007709 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 243277007710 SecY translocase; Region: SecY; pfam00344 243277007711 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 243277007712 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 243277007713 23S rRNA binding site [nucleotide binding]; other site 243277007714 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 243277007715 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 243277007716 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 243277007717 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 243277007718 5S rRNA interface [nucleotide binding]; other site 243277007719 23S rRNA interface [nucleotide binding]; other site 243277007720 L5 interface [polypeptide binding]; other site 243277007721 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 243277007722 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 243277007723 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 243277007724 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 243277007725 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 243277007726 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 243277007727 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 243277007728 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 243277007729 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 243277007730 KOW motif; Region: KOW; cl00354 243277007731 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 243277007732 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 243277007733 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 243277007734 L23 interface [polypeptide binding]; other site 243277007735 signal recognition particle (SRP54) interaction site; other site 243277007736 trigger factor interaction site; other site 243277007737 23S rRNA interface [nucleotide binding]; other site 243277007738 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 243277007739 23S rRNA interface [nucleotide binding]; other site 243277007740 5S rRNA interface [nucleotide binding]; other site 243277007741 putative antibiotic binding site [chemical binding]; other site 243277007742 L25 interface [polypeptide binding]; other site 243277007743 L27 interface [polypeptide binding]; other site 243277007744 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 243277007745 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 243277007746 G-X-X-G motif; other site 243277007747 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 243277007748 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 243277007749 putative translocon binding site; other site 243277007750 protein-rRNA interface [nucleotide binding]; other site 243277007751 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 243277007752 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 243277007753 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 243277007754 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 243277007755 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 243277007756 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 243277007757 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 243277007758 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 243277007759 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 243277007760 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 243277007761 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 243277007762 exoribonuclease R; Provisional; Region: PRK11642 243277007763 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 243277007764 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 243277007765 RNB domain; Region: RNB; pfam00773 243277007766 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 243277007767 RNA binding site [nucleotide binding]; other site 243277007768 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 243277007769 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 243277007770 Sulfatase; Region: Sulfatase; cl10460 243277007771 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 243277007772 Sel1 repeat; Region: Sel1; cl02723 243277007773 Sel1 repeat; Region: Sel1; cl02723 243277007774 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 243277007775 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 243277007776 GDP-binding site [chemical binding]; other site 243277007777 ACT binding site; other site 243277007778 IMP binding site; other site 243277007779 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 243277007780 catalytic nucleophile [active] 243277007781 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 243277007782 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 243277007783 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 243277007784 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 243277007785 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277007786 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 243277007787 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 243277007788 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 243277007789 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 243277007790 ABC transporter; Region: ABC_tran_2; pfam12848 243277007791 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 243277007792 Protein of unknown function (DUF2390); Region: DUF2390; cl02376 243277007793 putative hydrolase; Provisional; Region: PRK10985 243277007794 Uncharacterised protein family (UPF0270); Region: UPF0270; cl01180 243277007795 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277007796 active site 243277007797 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 243277007798 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 243277007799 ligand binding site [chemical binding]; other site 243277007800 flexible hinge region; other site 243277007801 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 243277007802 putative switch regulator; other site 243277007803 non-specific DNA interactions [nucleotide binding]; other site 243277007804 DNA binding site [nucleotide binding] 243277007805 sequence specific DNA binding site [nucleotide binding]; other site 243277007806 putative cAMP binding site [chemical binding]; other site 243277007807 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 243277007808 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 243277007809 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 243277007810 NAD(P) binding site [chemical binding]; other site 243277007811 catalytic residues [active] 243277007812 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 243277007813 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 243277007814 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 243277007815 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 243277007816 inhibitor-cofactor binding pocket; inhibition site 243277007817 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243277007818 catalytic residue [active] 243277007819 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 243277007820 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 243277007821 glutamine binding [chemical binding]; other site 243277007822 catalytic triad [active] 243277007823 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 243277007824 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 243277007825 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 243277007826 FeS/SAM binding site; other site 243277007827 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 243277007828 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 243277007829 generic binding surface I; other site 243277007830 generic binding surface II; other site 243277007831 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 243277007832 putative catalytic site [active] 243277007833 putative metal binding site [ion binding]; other site 243277007834 putative phosphate binding site [ion binding]; other site 243277007835 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 243277007836 conserved hypothetical protein; Region: TIGR02285 243277007837 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 243277007838 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 243277007839 active site 243277007840 HIGH motif; other site 243277007841 dimer interface [polypeptide binding]; other site 243277007842 KMSKS motif; other site 243277007843 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 243277007844 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 243277007845 motif II; other site 243277007846 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 243277007847 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 243277007848 substrate binding site [chemical binding]; other site 243277007849 hexamer interface [polypeptide binding]; other site 243277007850 metal binding site [ion binding]; metal-binding site 243277007851 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 243277007852 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 243277007853 Sporulation related domain; Region: SPOR; cl10051 243277007854 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 243277007855 active site 243277007856 dimer interface [polypeptide binding]; other site 243277007857 metal binding site [ion binding]; metal-binding site 243277007858 shikimate kinase; Reviewed; Region: aroK; PRK00131 243277007859 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 243277007860 ADP binding site [chemical binding]; other site 243277007861 magnesium binding site [ion binding]; other site 243277007862 putative shikimate binding site; other site 243277007863 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 243277007864 Secretin and TonB N terminus short domain; Region: STN; cl06624 243277007865 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 243277007866 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 243277007867 Pilus assembly protein, PilP; Region: PilP; cl01235 243277007868 Pilus assembly protein, PilO; Region: PilO; cl01234 243277007869 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 243277007870 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 243277007871 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 243277007872 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 243277007873 Transglycosylase; Region: Transgly; cl07896 243277007874 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 243277007875 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 243277007876 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277007877 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 243277007878 dimerization interface [polypeptide binding]; other site 243277007879 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 243277007880 catalytic triad [active] 243277007881 dimer interface [polypeptide binding]; other site 243277007882 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 243277007883 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 243277007884 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 243277007885 Protein of unknown function (DUF3624); Region: DUF3624; pfam12292 243277007886 argininosuccinate lyase; Provisional; Region: PRK04833 243277007887 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 243277007888 active sites [active] 243277007889 tetramer interface [polypeptide binding]; other site 243277007890 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 243277007891 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 243277007892 ANP binding site [chemical binding]; other site 243277007893 Substrate Binding Site II [chemical binding]; other site 243277007894 Substrate Binding Site I [chemical binding]; other site 243277007895 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 243277007896 nucleotide binding site [chemical binding]; other site 243277007897 substrate binding site [chemical binding]; other site 243277007898 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 243277007899 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277007900 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 243277007901 acetylornithine deacetylase; Provisional; Region: PRK05111 243277007902 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 243277007903 metal binding site [ion binding]; metal-binding site 243277007904 putative dimer interface [polypeptide binding]; other site 243277007905 Phosphoenolpyruvate carboxylase [Carbohydrate transport and metabolism; Energy production and conversion]; Region: COG1892; cl14656 243277007906 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 243277007907 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277007908 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 243277007909 serine acetyltransferase; Provisional; Region: cysE; PRK11132 243277007910 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 243277007911 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 243277007912 trimer interface [polypeptide binding]; other site 243277007913 active site 243277007914 substrate binding site [chemical binding]; other site 243277007915 CoA binding site [chemical binding]; other site 243277007916 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 243277007917 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277007918 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 243277007919 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 243277007920 SecA binding site; other site 243277007921 Preprotein binding site; other site 243277007922 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 243277007923 active site residue [active] 243277007924 poxB regulator PoxA; Provisional; Region: PRK09350 243277007925 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 243277007926 motif 1; other site 243277007927 dimer interface [polypeptide binding]; other site 243277007928 active site 243277007929 motif 2; other site 243277007930 motif 3; other site 243277007931 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 243277007932 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277007933 domain; Region: Succ_DH_flav_C; pfam02910 243277007934 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 243277007935 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 243277007936 catalytic loop [active] 243277007937 iron binding site [ion binding]; other site 243277007938 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 243277007939 D-subunit interface [polypeptide binding]; other site 243277007940 Iron-sulfur protein interface; other site 243277007941 proximal quinone binding site [chemical binding]; other site 243277007942 distal quinone binding site [chemical binding]; other site 243277007943 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 243277007944 Iron-sulfur protein interface; other site 243277007945 proximal quinone binding site [chemical binding]; other site 243277007946 C-subunit interface; other site 243277007947 distal quinone binding site; other site 243277007948 elongation factor P; Validated; Region: PRK00529 243277007949 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 243277007950 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 243277007951 RNA binding site [nucleotide binding]; other site 243277007952 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 243277007953 RNA binding site [nucleotide binding]; other site 243277007954 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 243277007955 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 243277007956 FeS/SAM binding site; other site 243277007957 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 243277007958 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 243277007959 ring oligomerisation interface [polypeptide binding]; other site 243277007960 ATP/Mg binding site [chemical binding]; other site 243277007961 stacking interactions; other site 243277007962 hinge regions; other site 243277007963 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 243277007964 oligomerisation interface [polypeptide binding]; other site 243277007965 mobile loop; other site 243277007966 roof hairpin; other site 243277007967 Predicted transcriptional regulator [Transcription]; Region: COG2345 243277007968 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277007969 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277007970 Protein of unknown function (DUF3135); Region: DUF3135; pfam11333 243277007971 Protein of unknown function (DUF805); Region: DUF805; cl01224 243277007972 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 243277007973 putative substrate binding pocket [chemical binding]; other site 243277007974 trimer interface [polypeptide binding]; other site 243277007975 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 243277007976 substrate binding site [chemical binding]; other site 243277007977 dimer interface [polypeptide binding]; other site 243277007978 catalytic triad [active] 243277007979 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 243277007980 MatE; Region: MatE; cl10513 243277007981 MatE; Region: MatE; cl10513 243277007982 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 243277007983 UbiA prenyltransferase family; Region: UbiA; cl00337 243277007984 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 243277007985 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 243277007986 Walker A motif; other site 243277007987 ATP binding site [chemical binding]; other site 243277007988 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277007989 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 243277007990 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 243277007991 active site 243277007992 HslU subunit interaction site [polypeptide binding]; other site 243277007993 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 243277007994 Sporulation related domain; Region: SPOR; cl10051 243277007995 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 243277007996 DNA binding site [nucleotide binding] 243277007997 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 243277007998 domain linker motif; other site 243277007999 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 243277008000 dimerization interface [polypeptide binding]; other site 243277008001 ligand binding site [chemical binding]; other site 243277008002 primosome assembly protein PriA; Validated; Region: PRK05580 243277008003 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 243277008004 ATP binding site [chemical binding]; other site 243277008005 putative Mg++ binding site [ion binding]; other site 243277008006 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 243277008007 ATP-binding site [chemical binding]; other site 243277008008 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 243277008009 Malic enzyme, N-terminal domain; Region: malic; pfam00390 243277008010 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 243277008011 putative NAD(P) binding site [chemical binding]; other site 243277008012 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox' sequence. MetJ...; Region: Met_repressor_MetJ; cd00490 243277008013 dimerization interface [polypeptide binding]; other site 243277008014 DNA binding site [nucleotide binding] 243277008015 corepressor binding sites; other site 243277008016 cystathionine gamma-synthase; Provisional; Region: PRK08861 243277008017 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 243277008018 homodimer interface [polypeptide binding]; other site 243277008019 substrate-cofactor binding pocket; other site 243277008020 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243277008021 catalytic residue [active] 243277008022 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 243277008023 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 243277008024 nucleotide binding site [chemical binding]; other site 243277008025 substrate binding site [chemical binding]; other site 243277008026 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277008027 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 243277008028 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 243277008029 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 243277008030 FAD binding site [chemical binding]; other site 243277008031 Protein of unknown function (DUF904); Region: DUF904; cl11531 243277008032 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 243277008033 putative active site [active] 243277008034 6-phosphofructokinase; Provisional; Region: PRK03202 243277008035 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 243277008036 active site 243277008037 ADP/pyrophosphate binding site [chemical binding]; other site 243277008038 dimerization interface [polypeptide binding]; other site 243277008039 allosteric effector site; other site 243277008040 fructose-1,6-bisphosphate binding site; other site 243277008041 Cation efflux family; Region: Cation_efflux; cl00316 243277008042 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 243277008043 dimer interface [polypeptide binding]; other site 243277008044 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 243277008045 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277008046 active site 243277008047 phosphorylation site [posttranslational modification] 243277008048 intermolecular recognition site; other site 243277008049 dimerization interface [polypeptide binding]; other site 243277008050 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 243277008051 DNA binding site [nucleotide binding] 243277008052 two-component sensor protein; Provisional; Region: cpxA; PRK09470 243277008053 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 243277008054 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 243277008055 dimer interface [polypeptide binding]; other site 243277008056 phosphorylation site [posttranslational modification] 243277008057 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277008058 ATP binding site [chemical binding]; other site 243277008059 Mg2+ binding site [ion binding]; other site 243277008060 G-X-G motif; other site 243277008061 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 243277008062 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 243277008063 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 243277008064 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 243277008065 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 243277008066 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277008067 metal binding site [ion binding]; metal-binding site 243277008068 active site 243277008069 I-site; other site 243277008070 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 243277008071 Aspartase; Region: Aspartase; cd01357 243277008072 active sites [active] 243277008073 tetramer interface [polypeptide binding]; other site 243277008074 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 243277008075 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 243277008076 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 243277008077 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 243277008078 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 243277008079 DsbD alpha interface [polypeptide binding]; other site 243277008080 catalytic residues [active] 243277008081 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 243277008082 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277008083 active site 243277008084 phosphorylation site [posttranslational modification] 243277008085 intermolecular recognition site; other site 243277008086 dimerization interface [polypeptide binding]; other site 243277008087 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 243277008088 DNA binding residues [nucleotide binding] 243277008089 dimerization interface [polypeptide binding]; other site 243277008090 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 243277008091 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 243277008092 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 243277008093 Transporter associated domain; Region: CorC_HlyC; cl08393 243277008094 Predicted membrane protein [Function unknown]; Region: COG4327; cl01781 243277008095 Sodium:solute symporter family; Region: SSF; cl00456 243277008096 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 243277008097 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 243277008098 catalytic site [active] 243277008099 G-X2-G-X-G-K; other site 243277008100 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 243277008101 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 243277008102 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 243277008103 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 243277008104 synthetase active site [active] 243277008105 NTP binding site [chemical binding]; other site 243277008106 metal binding site [ion binding]; metal-binding site 243277008107 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 243277008108 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 243277008109 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 243277008110 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 243277008111 ssDNA binding site; other site 243277008112 generic binding surface II; other site 243277008113 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 243277008114 ATP binding site [chemical binding]; other site 243277008115 putative Mg++ binding site [ion binding]; other site 243277008116 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 243277008117 nucleotide binding region [chemical binding]; other site 243277008118 ATP-binding site [chemical binding]; other site 243277008119 Permease family; Region: Xan_ur_permease; cl00967 243277008120 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 243277008121 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 243277008122 dimerization interface [polypeptide binding]; other site 243277008123 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 243277008124 dimer interface [polypeptide binding]; other site 243277008125 phosphorylation site [posttranslational modification] 243277008126 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277008127 ATP binding site [chemical binding]; other site 243277008128 Mg2+ binding site [ion binding]; other site 243277008129 G-X-G motif; other site 243277008130 osmolarity response regulator; Provisional; Region: ompR; PRK09468 243277008131 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277008132 active site 243277008133 phosphorylation site [posttranslational modification] 243277008134 intermolecular recognition site; other site 243277008135 dimerization interface [polypeptide binding]; other site 243277008136 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 243277008137 DNA binding site [nucleotide binding] 243277008138 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 243277008139 domain; Region: GreA_GreB_N; pfam03449 243277008140 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 243277008141 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 243277008142 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 243277008143 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 243277008144 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 243277008145 RNA binding site [nucleotide binding]; other site 243277008146 putative pimeloyl-BioC--CoA transferase BioH; Region: bioH; TIGR01738 243277008147 Uncharacterised protein family (UPF0227); Region: UPF0227; cl14886 243277008148 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 243277008149 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 243277008150 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 243277008151 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 243277008152 NifU-like domain; Region: NifU; cl00484 243277008153 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 243277008154 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 243277008155 dimer interface [polypeptide binding]; other site 243277008156 ADP-ribose binding site [chemical binding]; other site 243277008157 active site 243277008158 nudix motif; other site 243277008159 metal binding site [ion binding]; metal-binding site 243277008160 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 243277008161 active site 243277008162 Bacterial type II secretion system protein N; Region: GSPII_N; pfam01203 243277008163 General secretion pathway, M protein; Region: GspM; cl01222 243277008164 Type II secretory pathway, component PulL [Intracellular trafficking and secretion]; Region: PulL; COG3297 243277008165 GspL cytoplasmic actin-ATPase-like region; Region: GspL; pfam05134 243277008166 GspL periplasmic domain; Region: GspL_C; cl14909 243277008167 General secretion pathway protein K; Region: GspK; pfam03934 243277008168 general secretion pathway protein J; Region: gspJ; TIGR01711 243277008169 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 243277008170 Pseudopilin GspJ; Region: GspJ; pfam11612 243277008171 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 243277008172 general secretion pathway protein I; Region: gspI; TIGR01707 243277008173 Bacterial type II secretion system protein I/J; Region: GSPII_IJ; pfam02501 243277008174 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 243277008175 Bacterial type II secretion system protein G; Region: GSPII_G; pfam08334 243277008176 general secretion pathway protein F; Region: GspF; TIGR02120 243277008177 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 243277008178 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 243277008179 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 243277008180 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 243277008181 Walker A motif; other site 243277008182 ATP binding site [chemical binding]; other site 243277008183 Walker B motif; other site 243277008184 general secretion pathway protein C; Region: typeII_sec_gspC; TIGR01713 243277008185 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 243277008186 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 243277008187 RNA binding surface [nucleotide binding]; other site 243277008188 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 243277008189 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 243277008190 dimerization interface [polypeptide binding]; other site 243277008191 domain crossover interface; other site 243277008192 redox-dependent activation switch; other site 243277008193 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 243277008194 active site 243277008195 substrate-binding site [chemical binding]; other site 243277008196 metal-binding site [ion binding] 243277008197 ATP binding site [chemical binding]; other site 243277008198 AsmA family; Region: AsmA; pfam05170 243277008199 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277008200 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 243277008201 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 243277008202 putative active site [active] 243277008203 dimerization interface [polypeptide binding]; other site 243277008204 putative tRNAtyr binding site [nucleotide binding]; other site 243277008205 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 243277008206 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; cl01238 243277008207 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 243277008208 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 243277008209 G1 box; other site 243277008210 putative GEF interaction site [polypeptide binding]; other site 243277008211 GTP/Mg2+ binding site [chemical binding]; other site 243277008212 Switch I region; other site 243277008213 G2 box; other site 243277008214 G3 box; other site 243277008215 Switch II region; other site 243277008216 G4 box; other site 243277008217 G5 box; other site 243277008218 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 243277008219 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 243277008220 glutamine synthetase; Provisional; Region: glnA; PRK09469 243277008221 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 243277008222 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 243277008223 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 243277008224 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 243277008225 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 243277008226 dimer interface [polypeptide binding]; other site 243277008227 phosphorylation site [posttranslational modification] 243277008228 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277008229 ATP binding site [chemical binding]; other site 243277008230 Mg2+ binding site [ion binding]; other site 243277008231 G-X-G motif; other site 243277008232 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 243277008233 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277008234 active site 243277008235 phosphorylation site [posttranslational modification] 243277008236 intermolecular recognition site; other site 243277008237 dimerization interface [polypeptide binding]; other site 243277008238 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 243277008239 Walker A motif; other site 243277008240 ATP binding site [chemical binding]; other site 243277008241 Walker B motif; other site 243277008242 arginine finger; other site 243277008243 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277008244 Cache domain; Region: Cache_1; pfam02743 243277008245 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 243277008246 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277008247 metal binding site [ion binding]; metal-binding site 243277008248 active site 243277008249 I-site; other site 243277008250 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 243277008251 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 243277008252 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 243277008253 active site 243277008254 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 243277008255 Cation transport protein; Region: TrkH; cl10514 243277008256 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 243277008257 hypothetical protein; Provisional; Region: PRK11568 243277008258 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 243277008259 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 243277008260 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 243277008261 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 243277008262 substrate binding site [chemical binding]; other site 243277008263 oxyanion hole (OAH) forming residues; other site 243277008264 trimer interface [polypeptide binding]; other site 243277008265 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; cl12011 243277008266 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 243277008267 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 243277008268 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 243277008269 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 243277008270 dimer interface [polypeptide binding]; other site 243277008271 active site 243277008272 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 243277008273 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277008274 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 243277008275 dimerization interface [polypeptide binding]; other site 243277008276 putative transporter; Provisional; Region: PRK11043 243277008277 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 243277008278 putative substrate translocation pore; other site 243277008279 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 243277008280 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 243277008281 Substrate binding site; other site 243277008282 Mg++ binding site; other site 243277008283 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 243277008284 active site 243277008285 substrate binding site [chemical binding]; other site 243277008286 CoA binding site [chemical binding]; other site 243277008287 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 243277008288 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 243277008289 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 243277008290 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 243277008291 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 243277008292 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 243277008293 alpha subunit interaction interface [polypeptide binding]; other site 243277008294 Walker A motif; other site 243277008295 ATP binding site [chemical binding]; other site 243277008296 Walker B motif; other site 243277008297 inhibitor binding site; inhibition site 243277008298 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 243277008299 ATP synthase; Region: ATP-synt; cl00365 243277008300 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 243277008301 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 243277008302 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 243277008303 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 243277008304 beta subunit interaction interface [polypeptide binding]; other site 243277008305 Walker A motif; other site 243277008306 ATP binding site [chemical binding]; other site 243277008307 Walker B motif; other site 243277008308 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 243277008309 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl15360 243277008310 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 243277008311 Plant ATP synthase F0; Region: YMF19; cl07975 243277008312 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 243277008313 ATP synthase subunit C; Region: ATP-synt_C; cl00466 243277008314 ATP synthase A chain; Region: ATP-synt_A; cl00413 243277008315 ATP synthase I chain; Region: ATP_synt_I; cl09170 243277008316 ParB-like partition proteins; Region: parB_part; TIGR00180 243277008317 ParB-like nuclease domain; Region: ParBc; cl02129 243277008318 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 243277008319 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 243277008320 P-loop; other site 243277008321 Magnesium ion binding site [ion binding]; other site 243277008322 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 243277008323 Magnesium ion binding site [ion binding]; other site 243277008324 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 243277008325 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 243277008326 S-adenosylmethionine binding site [chemical binding]; other site 243277008327 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 243277008328 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 243277008329 Protein of unknown function (DUF3346); Region: DUF3346; pfam11826 243277008330 Protein of unknown function (DUF3283); Region: DUF3283; pfam11686 243277008331 Domain of unknown function DUF28; Region: DUF28; cl00361 243277008332 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 243277008333 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277008334 NAD(P) binding pocket [chemical binding]; other site 243277008335 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 243277008336 Cache domain; Region: Cache_2; cl07034 243277008337 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 243277008338 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277008339 Protein of unknown function (DUF2810); Region: DUF2810; cl08159 243277008340 transcriptional regulator MalT; Provisional; Region: PRK04841 243277008341 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 243277008342 DNA binding residues [nucleotide binding] 243277008343 dimerization interface [polypeptide binding]; other site 243277008344 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 243277008345 homodimer interface [polypeptide binding]; other site 243277008346 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 243277008347 active site pocket [active] 243277008348 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 243277008349 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 243277008350 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 243277008351 glycogen branching enzyme; Provisional; Region: PRK05402 243277008352 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 243277008353 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 243277008354 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 243277008355 Protein of unknown function (DUF796); Region: DUF796; cl01226 243277008356 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 243277008357 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 243277008358 MAPEG family; Region: MAPEG; cl09190 243277008359 OpgC protein; Region: OpgC_C; cl00792 243277008360 Acyltransferase family; Region: Acyl_transf_3; pfam01757 243277008361 Membrane transport protein; Region: Mem_trans; cl09117 243277008362 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 243277008363 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 243277008364 transmembrane helices; other site 243277008365 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 243277008366 N-terminal Early set domain associated with the catalytic domain of chitinase; Region: E_set_Chitinase_N; cd02848 243277008367 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 243277008368 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 243277008369 active site 243277008370 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 243277008371 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 243277008372 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 243277008373 chitin/cellulose binding site [chemical binding]; other site 243277008374 Transcriptional regulator [Transcription]; Region: IclR; COG1414 243277008375 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277008376 Bacterial transcriptional regulator; Region: IclR; pfam01614 243277008377 Arginase family; Region: Arginase; cl00306 243277008378 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 243277008379 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277008380 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 243277008381 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 243277008382 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 243277008383 active site 243277008384 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 243277008385 Protein of unknown function (DUF461); Region: DUF461; cl01071 243277008386 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 243277008387 Cu(I) binding site [ion binding]; other site 243277008388 Domain of unknown function (DUF368); Region: DUF368; cl00893 243277008389 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 243277008390 Flagellar protein YcgR; Region: YcgR_2; pfam12945 243277008391 PilZ domain; Region: PilZ; cl01260 243277008392 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277008393 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 243277008394 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 243277008395 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 243277008396 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 243277008397 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 243277008398 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 243277008399 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 243277008400 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 243277008401 protein binding site [polypeptide binding]; other site 243277008402 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 243277008403 Domain interface; other site 243277008404 Peptide binding site; other site 243277008405 Active site tetrad [active] 243277008406 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 243277008407 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 243277008408 Coiled-coil receptor-binding R-domain of colicin E2; Region: E2R135; pfam11570 243277008409 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 243277008410 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277008411 metal binding site [ion binding]; metal-binding site 243277008412 active site 243277008413 I-site; other site 243277008414 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 243277008415 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277008416 DNA binding residues [nucleotide binding] 243277008417 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 243277008418 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 243277008419 Protein of unknown function (DUF523); Region: DUF523; cl00733 243277008420 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 243277008421 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 243277008422 DNA binding residues [nucleotide binding] 243277008423 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 243277008424 DNA photolyase; Region: DNA_photolyase; pfam00875 243277008425 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 243277008426 L,D-transpeptidase; Provisional; Region: PRK10190 243277008427 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 243277008428 putative peptidoglycan binding site; other site 243277008429 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 243277008430 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 243277008431 helicase 45; Provisional; Region: PTZ00424 243277008432 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 243277008433 ATP binding site [chemical binding]; other site 243277008434 Mg++ binding site [ion binding]; other site 243277008435 motif III; other site 243277008436 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 243277008437 nucleotide binding region [chemical binding]; other site 243277008438 ATP-binding site [chemical binding]; other site 243277008439 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 243277008440 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 243277008441 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 243277008442 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 243277008443 N-terminal plug; other site 243277008444 ligand-binding site [chemical binding]; other site 243277008445 Peptidase M36 family also known as fungalysin family; Region: M36; cd09596 243277008446 Zn binding site [ion binding]; other site 243277008447 Regulatory P domain of the subtilisin-like proprotein convertases and other proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG4935 243277008448 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 243277008449 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 243277008450 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 243277008451 dimerization interface [polypeptide binding]; other site 243277008452 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277008453 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277008454 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 243277008455 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 243277008456 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277008457 dimer interface [polypeptide binding]; other site 243277008458 conserved gate region; other site 243277008459 putative PBP binding loops; other site 243277008460 ABC-ATPase subunit interface; other site 243277008461 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 243277008462 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277008463 dimer interface [polypeptide binding]; other site 243277008464 conserved gate region; other site 243277008465 putative PBP binding loops; other site 243277008466 ABC-ATPase subunit interface; other site 243277008467 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14253 243277008468 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 243277008469 Walker A/P-loop; other site 243277008470 ATP binding site [chemical binding]; other site 243277008471 Q-loop/lid; other site 243277008472 ABC transporter signature motif; other site 243277008473 Walker B; other site 243277008474 D-loop; other site 243277008475 H-loop/switch region; other site 243277008476 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277008477 metal binding site [ion binding]; metal-binding site 243277008478 active site 243277008479 I-site; other site 243277008480 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 243277008481 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 243277008482 Nucleoside recognition; Region: Gate; cl00486 243277008483 putative transporter; Provisional; Region: PRK11660 243277008484 Permease family; Region: Xan_ur_permease; cl00967 243277008485 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 243277008486 N-terminal Early set domain associated with the catalytic domain of isoamylase-like (also called glycogen 6-glucanohydrolase) proteins; Region: E_set_Isoamylase_like_N; cd07184 243277008487 putative peptidase; Provisional; Region: PRK11649 243277008488 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 243277008489 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 243277008490 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277008491 metal binding site [ion binding]; metal-binding site 243277008492 active site 243277008493 I-site; other site 243277008494 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 243277008495 Transcriptional regulator [Transcription]; Region: LysR; COG0583 243277008496 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277008497 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 243277008498 putative effector binding pocket; other site 243277008499 dimerization interface [polypeptide binding]; other site 243277008500 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 243277008501 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 243277008502 putative substrate translocation pore; other site 243277008503 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 243277008504 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 243277008505 DNA binding residues [nucleotide binding] 243277008506 dimer interface [polypeptide binding]; other site 243277008507 [2Fe-2S] cluster binding site [ion binding]; other site 243277008508 H+ Antiporter protein; Region: 2A0121; TIGR00900 243277008509 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 243277008510 putative substrate translocation pore; other site 243277008511 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 243277008512 EamA-like transporter family; Region: EamA; cl01037 243277008513 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 243277008514 EamA-like transporter family; Region: EamA; cl01037 243277008515 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; cl15358 243277008516 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 243277008517 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277008518 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 243277008519 active site 243277008520 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 243277008521 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 243277008522 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 243277008523 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 243277008524 active site 243277008525 putative oxidoreductase; Provisional; Region: PRK11579 243277008526 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277008527 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 243277008528 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 243277008529 active site residue [active] 243277008530 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 243277008531 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 243277008532 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 243277008533 motif II; other site 243277008534 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 243277008535 Permease family; Region: Xan_ur_permease; cl00967 243277008536 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 243277008537 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 243277008538 active site 243277008539 Uncharacterized conserved protein [Function unknown]; Region: COG4104 243277008540 PAAR motif; Region: PAAR_motif; pfam05488 243277008541 PAAR motif; Region: PAAR_motif; pfam05488 243277008542 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 243277008543 Protein of unknown function (DUF770); Region: DUF770; cl01402 243277008544 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 243277008545 Protein of unknown function (DUF877); Region: DUF877; pfam05943 243277008546 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 243277008547 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 243277008548 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 243277008549 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 243277008550 Predicted component of the type VI protein secretion system, contains a FHA domain [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]; Region: COG3456 243277008551 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 243277008552 Bacterial protein of unknown function (DUF876); Region: DUF876; cl01406 243277008553 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 243277008554 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 243277008555 Clp amino terminal domain; Region: Clp_N; pfam02861 243277008556 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 243277008557 Walker A motif; other site 243277008558 ATP binding site [chemical binding]; other site 243277008559 Walker B motif; other site 243277008560 arginine finger; other site 243277008561 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 243277008562 Walker A motif; other site 243277008563 ATP binding site [chemical binding]; other site 243277008564 Walker B motif; other site 243277008565 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 243277008566 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 243277008567 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 243277008568 Walker A motif; other site 243277008569 ATP binding site [chemical binding]; other site 243277008570 Walker B motif; other site 243277008571 arginine finger; other site 243277008572 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277008573 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 243277008574 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 243277008575 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 243277008576 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 243277008577 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 243277008578 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 243277008579 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 243277008580 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 243277008581 tyramine oxidase; Provisional; Region: tynA; PRK14696 243277008582 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 243277008583 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 243277008584 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 243277008585 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 243277008586 Protein of unknown function (DUF3012); Region: DUF3012; pfam11216 243277008587 Protein of unknown function (DUF3012); Region: DUF3012; pfam11216 243277008588 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 243277008589 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 243277008590 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 243277008591 Walker A/P-loop; other site 243277008592 ATP binding site [chemical binding]; other site 243277008593 Q-loop/lid; other site 243277008594 ABC transporter signature motif; other site 243277008595 Walker B; other site 243277008596 D-loop; other site 243277008597 H-loop/switch region; other site 243277008598 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 243277008599 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 243277008600 TM-ABC transporter signature motif; other site 243277008601 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 243277008602 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 243277008603 ligand binding site [chemical binding]; other site 243277008604 dimerization interface [polypeptide binding]; other site 243277008605 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 243277008606 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 243277008607 substrate binding site [chemical binding]; other site 243277008608 dimer interface [polypeptide binding]; other site 243277008609 ATP binding site [chemical binding]; other site 243277008610 transcriptional repressor RbsR; Provisional; Region: PRK10423 243277008611 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 243277008612 DNA binding site [nucleotide binding] 243277008613 domain linker motif; other site 243277008614 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 243277008615 dimerization interface [polypeptide binding]; other site 243277008616 ligand binding site [chemical binding]; other site 243277008617 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 243277008618 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 243277008619 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 243277008620 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 243277008621 ligand binding site [chemical binding]; other site 243277008622 flexible hinge region; other site 243277008623 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 243277008624 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 243277008625 active site 243277008626 catalytic site [active] 243277008627 metal binding site [ion binding]; metal-binding site 243277008628 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 243277008629 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 243277008630 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 243277008631 Protein of unknown function (DUF3316); Region: DUF3316; pfam11777 243277008632 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3397 243277008633 Chitin binding domain; Region: Chitin_bind_3; cl03871 243277008634 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 243277008635 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 243277008636 chitin/cellulose binding site [chemical binding]; other site 243277008637 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 243277008638 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 243277008639 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 243277008640 dimer interface [polypeptide binding]; other site 243277008641 phosphorylation site [posttranslational modification] 243277008642 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277008643 ATP binding site [chemical binding]; other site 243277008644 Mg2+ binding site [ion binding]; other site 243277008645 G-X-G motif; other site 243277008646 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 243277008647 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277008648 active site 243277008649 phosphorylation site [posttranslational modification] 243277008650 intermolecular recognition site; other site 243277008651 dimerization interface [polypeptide binding]; other site 243277008652 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 243277008653 Walker A motif; other site 243277008654 ATP binding site [chemical binding]; other site 243277008655 Walker B motif; other site 243277008656 arginine finger; other site 243277008657 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277008658 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 243277008659 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 243277008660 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 243277008661 Predicted dehydrogenase [General function prediction only]; Region: COG0579 243277008662 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277008663 Peptidase M66; Region: Peptidase_M66; pfam10462 243277008664 ToxR activated gene A lipoprotein; Region: TagA; pfam12561 243277008665 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 243277008666 active site 243277008667 catalytic residues [active] 243277008668 metal binding site [ion binding]; metal-binding site 243277008669 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 243277008670 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 243277008671 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 243277008672 FAD binding pocket [chemical binding]; other site 243277008673 FAD binding motif [chemical binding]; other site 243277008674 phosphate binding motif [ion binding]; other site 243277008675 beta-alpha-beta structure motif; other site 243277008676 NAD binding pocket [chemical binding]; other site 243277008677 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 243277008678 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 243277008679 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 243277008680 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 243277008681 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 243277008682 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 243277008683 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 243277008684 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 243277008685 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 243277008686 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 243277008687 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 243277008688 universal stress protein UspE; Provisional; Region: PRK11175 243277008689 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 243277008690 Ligand Binding Site [chemical binding]; other site 243277008691 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 243277008692 Ligand Binding Site [chemical binding]; other site 243277008693 Amino acid permease; Region: AA_permease; cl00524 243277008694 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 243277008695 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 243277008696 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 243277008697 catalytic residue [active] 243277008698 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 243277008699 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 243277008700 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277008701 metal binding site [ion binding]; metal-binding site 243277008702 active site 243277008703 I-site; other site 243277008704 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 243277008705 DNA-binding site [nucleotide binding]; DNA binding site 243277008706 RNA-binding motif; other site 243277008707 Protein of unknown function (DUF541); Region: SIMPL; cl01077 243277008708 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 243277008709 metal ion-dependent adhesion site (MIDAS); other site 243277008710 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 243277008711 TPR motif; other site 243277008712 binding surface 243277008713 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 243277008714 metal ion-dependent adhesion site (MIDAS); other site 243277008715 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 243277008716 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 243277008717 MoxR-like ATPases [General function prediction only]; Region: COG0714 243277008718 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 243277008719 Walker A motif; other site 243277008720 ATP binding site [chemical binding]; other site 243277008721 Walker B motif; other site 243277008722 arginine finger; other site 243277008723 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277008724 Cache domain; Region: Cache_1; pfam02743 243277008725 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 243277008726 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 243277008727 dimerization interface [polypeptide binding]; other site 243277008728 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277008729 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277008730 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 243277008731 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 243277008732 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 243277008733 catalytic residues [active] 243277008734 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 243277008735 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 243277008736 Nucleoside recognition; Region: Gate; cl00486 243277008737 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 243277008738 peptidase T; Region: peptidase-T; TIGR01882 243277008739 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 243277008740 metal binding site [ion binding]; metal-binding site 243277008741 dimer interface [polypeptide binding]; other site 243277008742 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 243277008743 Mechanosensitive ion channel; Region: MS_channel; pfam00924 243277008744 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 243277008745 GAF domain; Region: GAF; cl00853 243277008746 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 243277008747 Walker A motif; other site 243277008748 ATP binding site [chemical binding]; other site 243277008749 Walker B motif; other site 243277008750 arginine finger; other site 243277008751 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 243277008752 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 243277008753 heme-binding site [chemical binding]; other site 243277008754 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 243277008755 FAD binding pocket [chemical binding]; other site 243277008756 FAD binding motif [chemical binding]; other site 243277008757 phosphate binding motif [ion binding]; other site 243277008758 beta-alpha-beta structure motif; other site 243277008759 NAD binding pocket [chemical binding]; other site 243277008760 Heme binding pocket [chemical binding]; other site 243277008761 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 243277008762 DNA-binding site [nucleotide binding]; DNA binding site 243277008763 RNA-binding motif; other site 243277008764 Domain of unknown function; Region: DUF331; cl01149 243277008765 Response regulator receiver domain; Region: Response_reg; pfam00072 243277008766 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277008767 active site 243277008768 phosphorylation site [posttranslational modification] 243277008769 intermolecular recognition site; other site 243277008770 dimerization interface [polypeptide binding]; other site 243277008771 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 243277008772 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 243277008773 putative carbohydrate kinase; Provisional; Region: PRK10565 243277008774 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 243277008775 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 243277008776 putative substrate binding site [chemical binding]; other site 243277008777 putative ATP binding site [chemical binding]; other site 243277008778 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 243277008779 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277008780 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 243277008781 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 243277008782 Ion channel; Region: Ion_trans_2; cl11596 243277008783 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 243277008784 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 243277008785 active site 243277008786 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 243277008787 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; cl12011 243277008788 cofactor binding site; other site 243277008789 DNA binding site [nucleotide binding] 243277008790 substrate interaction site [chemical binding]; other site 243277008791 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; cl12011 243277008792 Protein of unknown function DUF262; Region: DUF262; cl14890 243277008793 Uncharacterized conserved protein [Function unknown]; Region: COG4938 243277008794 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277008795 Walker A/P-loop; other site 243277008796 ATP binding site [chemical binding]; other site 243277008797 Q-loop/lid; other site 243277008798 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 243277008799 Transposase IS200 like; Region: Y1_Tnp; cl00848 243277008800 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 243277008801 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 243277008802 ATP binding site [chemical binding]; other site 243277008803 Mg++ binding site [ion binding]; other site 243277008804 motif III; other site 243277008805 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 243277008806 nucleotide binding region [chemical binding]; other site 243277008807 ATP-binding site [chemical binding]; other site 243277008808 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 243277008809 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 243277008810 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 243277008811 homodimer interface [polypeptide binding]; other site 243277008812 NAD binding pocket [chemical binding]; other site 243277008813 ATP binding pocket [chemical binding]; other site 243277008814 Mg binding site [ion binding]; other site 243277008815 active-site loop [active] 243277008816 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 243277008817 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 243277008818 active site 243277008819 (T/H)XGH motif; other site 243277008820 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 243277008821 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 243277008822 active site 243277008823 phosphorylation site [posttranslational modification] 243277008824 intermolecular recognition site; other site 243277008825 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 243277008826 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 243277008827 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 243277008828 Zn2+ binding site [ion binding]; other site 243277008829 Mg2+ binding site [ion binding]; other site 243277008830 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 243277008831 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277008832 ATP binding site [chemical binding]; other site 243277008833 Mg2+ binding site [ion binding]; other site 243277008834 G-X-G motif; other site 243277008835 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 243277008836 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 243277008837 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 243277008838 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 243277008839 putative substrate translocation pore; other site 243277008840 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277008841 metal binding site [ion binding]; metal-binding site 243277008842 active site 243277008843 I-site; other site 243277008844 Fatty acyltransferase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: fatty_acyltransferase_like; cd01846 243277008845 active site 243277008846 catalytic triad [active] 243277008847 oxyanion hole [active] 243277008848 Hemolytic toxin N terminal; Region: Hemolysin_N; pfam12563 243277008849 Leukocidin/Hemolysin toxin family; Region: Leukocidin; cl08468 243277008850 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 243277008851 putative sugar binding sites [chemical binding]; other site 243277008852 Q-X-W motif; other site 243277008853 Jacalin-like lectin domain; Region: Jacalin_like; cd09302 243277008854 putative sugar binding site [chemical binding]; other site 243277008855 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277008856 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 243277008857 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277008858 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277008859 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 243277008860 lipase chaperone; Provisional; Region: PRK01294 243277008861 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 243277008862 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 243277008863 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 243277008864 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 243277008865 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 243277008866 TIGR03442 family protein; Region: TIGR03442 243277008867 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 243277008868 putative active site [active] 243277008869 putative dimer interface [polypeptide binding]; other site 243277008870 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 243277008871 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 243277008872 putative ligand binding residues [chemical binding]; other site 243277008873 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 243277008874 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 243277008875 ABC-ATPase subunit interface; other site 243277008876 dimer interface [polypeptide binding]; other site 243277008877 putative PBP binding regions; other site 243277008878 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 243277008879 ABC-ATPase subunit interface; other site 243277008880 dimer interface [polypeptide binding]; other site 243277008881 putative PBP binding regions; other site 243277008882 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 243277008883 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 243277008884 Walker A/P-loop; other site 243277008885 ATP binding site [chemical binding]; other site 243277008886 Q-loop/lid; other site 243277008887 ABC transporter signature motif; other site 243277008888 Walker B; other site 243277008889 D-loop; other site 243277008890 H-loop/switch region; other site 243277008891 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 243277008892 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 243277008893 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 243277008894 Acetokinase family; Region: Acetate_kinase; cl01029 243277008895 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 243277008896 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4337 243277008897 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 243277008898 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 243277008899 dimerization interface [polypeptide binding]; other site 243277008900 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 243277008901 dimer interface [polypeptide binding]; other site 243277008902 phosphorylation site [posttranslational modification] 243277008903 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277008904 ATP binding site [chemical binding]; other site 243277008905 Mg2+ binding site [ion binding]; other site 243277008906 G-X-G motif; other site 243277008907 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 243277008908 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277008909 active site 243277008910 phosphorylation site [posttranslational modification] 243277008911 intermolecular recognition site; other site 243277008912 dimerization interface [polypeptide binding]; other site 243277008913 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 243277008914 DNA binding site [nucleotide binding] 243277008915 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 243277008916 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 243277008917 AP (apurinic/apyrimidinic) site pocket; other site 243277008918 DNA interaction; other site 243277008919 Metal-binding active site; metal-binding site 243277008920 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 243277008921 active site 243277008922 dimer interface [polypeptide binding]; other site 243277008923 magnesium binding site [ion binding]; other site 243277008924 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 243277008925 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 243277008926 active site 243277008927 motif I; other site 243277008928 motif II; other site 243277008929 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 243277008930 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 243277008931 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 243277008932 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 243277008933 intersubunit interface [polypeptide binding]; other site 243277008934 active site 243277008935 Zn2+ binding site [ion binding]; other site 243277008936 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 243277008937 active site 243277008938 phosphorylation site [posttranslational modification] 243277008939 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 243277008940 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 243277008941 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 243277008942 P-loop; other site 243277008943 active site 243277008944 phosphorylation site [posttranslational modification] 243277008945 transcriptional repressor UlaR; Provisional; Region: PRK13509 243277008946 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277008947 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 243277008948 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 243277008949 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 243277008950 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 243277008951 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 243277008952 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 243277008953 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 243277008954 trimer interface [polypeptide binding]; other site 243277008955 active site 243277008956 substrate binding site [chemical binding]; other site 243277008957 CoA binding site [chemical binding]; other site 243277008958 Protein of unknown function (DUF3111); Region: DUF3111; pfam11308 243277008959 Protein of unknown function (DUF2861); Region: DUF2861; pfam11060 243277008960 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 243277008961 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277008962 active site 243277008963 phosphorylation site [posttranslational modification] 243277008964 intermolecular recognition site; other site 243277008965 dimerization interface [polypeptide binding]; other site 243277008966 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 243277008967 DNA binding site [nucleotide binding] 243277008968 Domain of unknown function (DUF3404); Region: DUF3404; pfam11884 243277008969 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 243277008970 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 243277008971 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277008972 ATP binding site [chemical binding]; other site 243277008973 Mg2+ binding site [ion binding]; other site 243277008974 G-X-G motif; other site 243277008975 Cupin domain; Region: Cupin_2; cl09118 243277008976 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 243277008977 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 243277008978 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 243277008979 Coenzyme A binding pocket [chemical binding]; other site 243277008980 Helix-Turn-Helix DNA binding domain of the Cfa transcription regulator; Region: HTH_Cfa; cd04789 243277008981 DNA binding residues [nucleotide binding] 243277008982 putative dimer interface [polypeptide binding]; other site 243277008983 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 243277008984 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 243277008985 S-adenosylmethionine binding site [chemical binding]; other site 243277008986 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 243277008987 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 243277008988 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 243277008989 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 243277008990 putative substrate translocation pore; other site 243277008991 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 243277008992 dimerization interface [polypeptide binding]; other site 243277008993 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277008994 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277008995 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 243277008996 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 243277008997 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 243277008998 catalytic residue [active] 243277008999 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 243277009000 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 243277009001 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277009002 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 243277009003 active site 243277009004 zinc binding site [ion binding]; other site 243277009005 Transposase IS200 like; Region: Y1_Tnp; cl00848 243277009006 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 243277009007 lipoyl attachment site [posttranslational modification]; other site 243277009008 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 243277009009 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 243277009010 dimer interface [polypeptide binding]; other site 243277009011 glycine-pyridoxal phosphate binding site [chemical binding]; other site 243277009012 active site 243277009013 folate binding site [chemical binding]; other site 243277009014 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 243277009015 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 243277009016 non-specific DNA binding site [nucleotide binding]; other site 243277009017 salt bridge; other site 243277009018 sequence-specific DNA binding site [nucleotide binding]; other site 243277009019 Cupin domain; Region: Cupin_2; cl09118 243277009020 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 243277009021 Phage integrase family; Region: Phage_integrase; pfam00589 243277009022 active site 243277009023 Int/Topo IB signature motif; other site 243277009024 Transposase domain (DUF772); Region: DUF772; cl12084 243277009025 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 243277009026 Uncharacterized conserved protein [Function unknown]; Region: COG4104 243277009027 PAAR motif; Region: PAAR_motif; pfam05488 243277009028 PAAR motif; Region: PAAR_motif; pfam05488 243277009029 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 243277009030 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 243277009031 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 243277009032 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 243277009033 active site 243277009034 dimer interface [polypeptide binding]; other site 243277009035 motif 1; other site 243277009036 motif 2; other site 243277009037 motif 3; other site 243277009038 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 243277009039 anticodon binding site; other site 243277009040 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 243277009041 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 243277009042 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 243277009043 ribosomal protein L20; Region: rpl20; CHL00068 243277009044 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 243277009045 23S rRNA binding site [nucleotide binding]; other site 243277009046 L21 binding site [polypeptide binding]; other site 243277009047 L13 binding site [polypeptide binding]; other site 243277009048 integron integrase; Region: integrase_gron; TIGR02249 243277009049 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 243277009050 Int/Topo IB signature motif; other site 243277009051 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 243277009052 active site 243277009053 Protein of unknown function (DUF2988); Region: DUF2988; pfam11206 243277009054 Protein of unknown function, DUF645; Region: DUF645; pfam04875 243277009055 Protein of unknown function (DUF2805); Region: DUF2805; cl11923 243277009056 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 243277009057 GIY-YIG motif/motif A; other site 243277009058 active site 243277009059 catalytic site [active] 243277009060 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 243277009061 trimer interface [polypeptide binding]; other site 243277009062 active site 243277009063 substrate binding site [chemical binding]; other site 243277009064 CoA binding site [chemical binding]; other site 243277009065 short chain dehydrogenase; Provisional; Region: PRK06123 243277009066 classical (c) SDRs; Region: SDR_c; cd05233 243277009067 NAD(P) binding site [chemical binding]; other site 243277009068 active site 243277009069 Protein of unknown function, DUF645; Region: DUF645; pfam04875 243277009070 Protein of unknown function, DUF645; Region: DUF645; pfam04875 243277009071 Protein of unknown function (DUF2988); Region: DUF2988; pfam11206 243277009072 Protein of unknown function, DUF645; Region: DUF645; pfam04875 243277009073 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 243277009074 active site 243277009075 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 243277009076 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 243277009077 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 243277009078 Phd_YefM; Region: PhdYeFM; cl09153 243277009079 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 243277009080 nudix motif; other site 243277009081 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 243277009082 Protein of unknown function (DUF1196); Region: DUF1196; pfam06709 243277009083 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 243277009084 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277009085 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 243277009086 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277009087 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 243277009088 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 243277009089 RelB antitoxin; Region: RelB; cl01171 243277009090 Protein of unknown function (DUF3709); Region: DUF3709; pfam12493 243277009091 Protein of unknown function (DUF3709); Region: DUF3709; pfam12493 243277009092 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 243277009093 dimer interface [polypeptide binding]; other site 243277009094 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 243277009095 metal binding site [ion binding]; metal-binding site 243277009096 Protein of unknown function (DUF2805); Region: DUF2805; cl11923 243277009097 OsmC-like protein; Region: OsmC; cl00767 243277009098 Protein of unknown function (DUF497); Region: DUF497; cl01108 243277009099 Protein of unknown function (DUF2988); Region: DUF2988; pfam11206 243277009100 Protein of unknown function, DUF645; Region: DUF645; pfam04875 243277009101 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 243277009102 putative dimer interface [polypeptide binding]; other site 243277009103 catalytic triad [active] 243277009104 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 243277009105 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 243277009106 Protein of unknown function (DUF3709); Region: DUF3709; pfam12493 243277009107 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 243277009108 dimer interface [polypeptide binding]; other site 243277009109 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 243277009110 metal binding site [ion binding]; metal-binding site 243277009111 Protein of unknown function (DUF2805); Region: DUF2805; cl11923 243277009112 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 243277009113 NC domain; Region: NC; pfam04970 243277009114 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 243277009115 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 243277009116 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 243277009117 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 243277009118 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 243277009119 Protein of unknown function (DUF2988); Region: DUF2988; pfam11206 243277009120 Protein of unknown function, DUF645; Region: DUF645; pfam04875 243277009121 Uncharacterised protein family (UPF0157); Region: UPF0157; cl00987 243277009122 LysE type translocator; Region: LysE; cl00565 243277009123 Protein of unknown function, DUF645; Region: DUF645; pfam04875 243277009124 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 243277009125 FAST kinase-like protein, subdomain 1; Region: FAST_1; pfam06743 243277009126 Restriction endonuclease; Region: Mrr_cat; cl00747 243277009127 putative transposase OrfB; Reviewed; Region: PHA02517 243277009128 Integrase core domain; Region: rve; cl01316 243277009129 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277009130 Domain of unknown function (DUF1817); Region: DUF1817; cl02292 243277009131 Protein of unknown function (DUF3709); Region: DUF3709; pfam12493 243277009132 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 243277009133 Protein of unknown function, DUF645; Region: DUF645; pfam04875 243277009134 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 243277009135 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277009136 Coenzyme A binding pocket [chemical binding]; other site 243277009137 Protein of unknown function, DUF645; Region: DUF645; pfam04875 243277009138 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 243277009139 Phd_YefM; Region: PhdYeFM; cl09153 243277009140 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277009141 Protein of unknown function (DUF3709); Region: DUF3709; pfam12493 243277009142 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 243277009143 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 243277009144 non-specific DNA binding site [nucleotide binding]; other site 243277009145 salt bridge; other site 243277009146 sequence-specific DNA binding site [nucleotide binding]; other site 243277009147 Protein of unknown function, DUF645; Region: DUF645; pfam04875 243277009148 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 243277009149 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 243277009150 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 243277009151 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 243277009152 Coenzyme A binding pocket [chemical binding]; other site 243277009153 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 243277009154 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 243277009155 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 243277009156 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 243277009157 Coenzyme A binding pocket [chemical binding]; other site 243277009158 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 243277009159 Protein of unknown function, DUF645; Region: DUF645; pfam04875 243277009160 Protein of unknown function (DUF2988); Region: DUF2988; pfam11206 243277009161 Protein of unknown function, DUF645; Region: DUF645; pfam04875 243277009162 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 243277009163 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 243277009164 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 243277009165 Protein of unknown function (DUF3709); Region: DUF3709; pfam12493 243277009166 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 243277009167 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277009168 Protein of unknown function, DUF645; Region: DUF645; pfam04875 243277009169 Phd_YefM; Region: PhdYeFM; cl09153 243277009170 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 243277009171 Protein of unknown function (DUF3709); Region: DUF3709; pfam12493 243277009172 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 243277009173 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 243277009174 Protein of unknown function (DUF1196); Region: DUF1196; pfam06709 243277009175 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 243277009176 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 243277009177 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 243277009178 Protein of unknown function (DUF2988); Region: DUF2988; pfam11206 243277009179 Protein of unknown function, DUF645; Region: DUF645; pfam04875 243277009180 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 243277009181 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277009182 Protein of unknown function, DUF645; Region: DUF645; pfam04875 243277009183 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 243277009184 putative dimer interface [polypeptide binding]; other site 243277009185 catalytic triad [active] 243277009186 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277009187 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 243277009188 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 243277009189 Phd_YefM; Region: PhdYeFM; cl09153 243277009190 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; cl12011 243277009191 HEPN domain; Region: HEPN; cl00824 243277009192 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 243277009193 conserved cys residue [active] 243277009194 Protein of unknown function (DUF2806); Region: DUF2806; cl12560 243277009195 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 243277009196 dimer interface [polypeptide binding]; other site 243277009197 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 243277009198 metal binding site [ion binding]; metal-binding site 243277009199 Protein of unknown function (DUF1196); Region: DUF1196; pfam06709 243277009200 Protein of unknown function (DUF1196); Region: DUF1196; pfam06709 243277009201 Predicted transcriptional regulator [Transcription]; Region: COG2944 243277009202 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277009203 putative acetyltransferase; Provisional; Region: PRK03624 243277009204 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 243277009205 Coenzyme A binding pocket [chemical binding]; other site 243277009206 Transposase domain (DUF772); Region: DUF772; cl12084 243277009207 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 243277009208 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 243277009209 CoA binding site [chemical binding]; other site 243277009210 active site 243277009211 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277009212 Fic/DOC family; Region: Fic; cl00960 243277009213 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 243277009214 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 243277009215 Phd_YefM; Region: PhdYeFM; cl09153 243277009216 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 243277009217 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 243277009218 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 243277009219 Coenzyme A binding pocket [chemical binding]; other site 243277009220 Protein of unknown function, DUF645; Region: DUF645; pfam04875 243277009221 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277009222 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 243277009223 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 243277009224 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 243277009225 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277009226 Phd_YefM; Region: PhdYeFM; cl09153 243277009227 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 243277009228 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 243277009229 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 243277009230 substrate binding pocket [chemical binding]; other site 243277009231 Transposase IS200 like; Region: Y1_Tnp; cl00848 243277009232 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277009233 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 243277009234 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 243277009235 C-terminal domain interface [polypeptide binding]; other site 243277009236 GSH binding site (G-site) [chemical binding]; other site 243277009237 dimer interface [polypeptide binding]; other site 243277009238 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 243277009239 N-terminal domain interface [polypeptide binding]; other site 243277009240 dimer interface [polypeptide binding]; other site 243277009241 substrate binding pocket (H-site) [chemical binding]; other site 243277009242 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 243277009243 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277009244 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 243277009245 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 243277009246 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 243277009247 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277009248 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 243277009249 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 243277009250 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277009251 putative transposase OrfB; Reviewed; Region: PHA02517 243277009252 Integrase core domain; Region: rve; cl01316 243277009253 Sulfatase; Region: Sulfatase; cl10460 243277009254 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 243277009255 ATP cone domain; Region: ATP-cone; pfam03477 243277009256 Class III ribonucleotide reductase; Region: RNR_III; cd01675 243277009257 effector binding site; other site 243277009258 active site 243277009259 Zn binding site [ion binding]; other site 243277009260 glycine loop; other site 243277009261 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; cl15367 243277009262 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 243277009263 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 243277009264 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 243277009265 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243277009266 homodimer interface [polypeptide binding]; other site 243277009267 catalytic residue [active] 243277009268 Protein of unknown function (DUF785); Region: DUF785; cl01682 243277009269 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 243277009270 P-loop; other site 243277009271 active site 243277009272 phosphorylation site [posttranslational modification] 243277009273 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 243277009274 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 243277009275 P-loop; other site 243277009276 active site 243277009277 phosphorylation site [posttranslational modification] 243277009278 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 243277009279 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 243277009280 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 243277009281 putative substrate binding site [chemical binding]; other site 243277009282 putative ATP binding site [chemical binding]; other site 243277009283 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 243277009284 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 243277009285 active site 243277009286 phosphorylation site [posttranslational modification] 243277009287 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; cl00163 243277009288 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 243277009289 dimerization domain swap beta strand [polypeptide binding]; other site 243277009290 regulatory protein interface [polypeptide binding]; other site 243277009291 active site 243277009292 regulatory phosphorylation site [posttranslational modification]; other site 243277009293 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 243277009294 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 243277009295 DNA binding site [nucleotide binding] 243277009296 domain linker motif; other site 243277009297 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 243277009298 dimerization interface [polypeptide binding]; other site 243277009299 ligand binding site [chemical binding]; other site 243277009300 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 243277009301 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 243277009302 active site 243277009303 metal binding site [ion binding]; metal-binding site 243277009304 DNA binding site [nucleotide binding] 243277009305 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 243277009306 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 243277009307 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 243277009308 Walker A/P-loop; other site 243277009309 ATP binding site [chemical binding]; other site 243277009310 Q-loop/lid; other site 243277009311 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 243277009312 ABC transporter signature motif; other site 243277009313 Walker B; other site 243277009314 D-loop; other site 243277009315 H-loop/switch region; other site 243277009316 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 243277009317 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 243277009318 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277009319 ATP binding site [chemical binding]; other site 243277009320 Mg2+ binding site [ion binding]; other site 243277009321 G-X-G motif; other site 243277009322 Response regulator receiver domain; Region: Response_reg; pfam00072 243277009323 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277009324 active site 243277009325 phosphorylation site [posttranslational modification] 243277009326 intermolecular recognition site; other site 243277009327 dimerization interface [polypeptide binding]; other site 243277009328 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 243277009329 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 243277009330 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 243277009331 catalytic residue [active] 243277009332 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 243277009333 gating phenylalanine in ion channel; other site 243277009334 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 243277009335 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 243277009336 Cl- selectivity filter; other site 243277009337 Cl- binding residues [ion binding]; other site 243277009338 pore gating glutamate residue; other site 243277009339 dimer interface [polypeptide binding]; other site 243277009340 H+/Cl- coupling transport residue; other site 243277009341 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 243277009342 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277009343 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 243277009344 YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The...; Region: YlqF; cd01856 243277009345 GTP/Mg2+ binding site [chemical binding]; other site 243277009346 G4 box; other site 243277009347 G5 box; other site 243277009348 G1 box; other site 243277009349 Switch I region; other site 243277009350 G2 box; other site 243277009351 G3 box; other site 243277009352 Switch II region; other site 243277009353 Amino acid permease; Region: AA_permease; cl00524 243277009354 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 243277009355 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 243277009356 dimer interface [polypeptide binding]; other site 243277009357 PYR/PP interface [polypeptide binding]; other site 243277009358 TPP binding site [chemical binding]; other site 243277009359 substrate binding site [chemical binding]; other site 243277009360 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 243277009361 Domain of unknown function; Region: EKR; cl11037 243277009362 4Fe-4S binding domain; Region: Fer4; cl02805 243277009363 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 243277009364 TPP-binding site [chemical binding]; other site 243277009365 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 243277009366 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 243277009367 dimer interface [polypeptide binding]; other site 243277009368 phosphorylation site [posttranslational modification] 243277009369 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277009370 ATP binding site [chemical binding]; other site 243277009371 Mg2+ binding site [ion binding]; other site 243277009372 G-X-G motif; other site 243277009373 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 243277009374 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277009375 active site 243277009376 phosphorylation site [posttranslational modification] 243277009377 intermolecular recognition site; other site 243277009378 dimerization interface [polypeptide binding]; other site 243277009379 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 243277009380 DNA binding site [nucleotide binding] 243277009381 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 243277009382 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 243277009383 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 243277009384 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 243277009385 YceI-like domain; Region: YceI; cl01001 243277009386 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 243277009387 FOG: CBS domain [General function prediction only]; Region: COG0517 243277009388 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 243277009389 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 243277009390 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 243277009391 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277009392 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 243277009393 putative dimerization interface [polypeptide binding]; other site 243277009394 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 243277009395 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 243277009396 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 243277009397 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 243277009398 putative active site [active] 243277009399 putative metal-binding site [ion binding]; other site 243277009400 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 243277009401 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 243277009402 active site 243277009403 metal binding site [ion binding]; metal-binding site 243277009404 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 243277009405 Integral membrane protein TerC family; Region: TerC; cl10468 243277009406 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; smart00782 243277009407 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 243277009408 PhnA protein; Region: PhnA; pfam03831 243277009409 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_2; cd06160 243277009410 active site 243277009411 putative substrate binding region [chemical binding]; other site 243277009412 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 243277009413 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 243277009414 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 243277009415 putative substrate translocation pore; other site 243277009416 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 243277009417 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 243277009418 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 243277009419 substrate binding pocket [chemical binding]; other site 243277009420 membrane-bound complex binding site; other site 243277009421 hinge residues; other site 243277009422 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277009423 metal binding site [ion binding]; metal-binding site 243277009424 active site 243277009425 I-site; other site 243277009426 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 243277009427 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 243277009428 Protein of unknown function (DUF3233); Region: DUF3233; pfam11557 243277009429 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277009430 metal binding site [ion binding]; metal-binding site 243277009431 active site 243277009432 I-site; other site 243277009433 Late competence development protein ComFB; Region: ComFB; pfam10719 243277009434 Transcriptional activator HlyU; Region: HlyU; cl02273 243277009435 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 243277009436 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 243277009437 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277009438 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 243277009439 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 243277009440 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 243277009441 Domain of unknown function (DUF3404); Region: DUF3404; pfam11884 243277009442 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 243277009443 dimer interface [polypeptide binding]; other site 243277009444 phosphorylation site [posttranslational modification] 243277009445 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277009446 ATP binding site [chemical binding]; other site 243277009447 Mg2+ binding site [ion binding]; other site 243277009448 G-X-G motif; other site 243277009449 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 243277009450 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277009451 active site 243277009452 phosphorylation site [posttranslational modification] 243277009453 intermolecular recognition site; other site 243277009454 dimerization interface [polypeptide binding]; other site 243277009455 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 243277009456 DNA binding site [nucleotide binding] 243277009457 Protein of unknown function (DUF2861); Region: DUF2861; pfam11060 243277009458 Uncharacterised protein family (UPF0181); Region: UPF0181; cl11477 243277009459 translation initiation factor Sui1; Validated; Region: PRK06824 243277009460 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation. This fold, which includes two...; Region: SUI1_eIF1; cl00229 243277009461 Predicted RNA interaction site [nucleotide binding]; other site 243277009462 putative binding site; other site 243277009463 Mutations affecting start-site selection; other site 243277009464 Protein of unknown function (DUF3319); Region: DUF3319; pfam11782 243277009465 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 243277009466 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 243277009467 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 243277009468 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 243277009469 Sporulation related domain; Region: SPOR; cl10051 243277009470 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 243277009471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277009472 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277009473 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 243277009474 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277009475 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 243277009476 dimerization interface [polypeptide binding]; other site 243277009477 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 243277009478 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 243277009479 N-terminal plug; other site 243277009480 ligand-binding site [chemical binding]; other site 243277009481 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 243277009482 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 243277009483 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 243277009484 Protein of unknown function (DUF3389); Region: DUF3389; pfam11869 243277009485 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 243277009486 CoenzymeA binding site [chemical binding]; other site 243277009487 subunit interaction site [polypeptide binding]; other site 243277009488 PHB binding site; other site 243277009489 Peptidase family M48; Region: Peptidase_M48; cl12018 243277009490 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 243277009491 RNA binding surface [nucleotide binding]; other site 243277009492 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 243277009493 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 243277009494 substrate binding pocket [chemical binding]; other site 243277009495 membrane-bound complex binding site; other site 243277009496 hinge residues; other site 243277009497 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 243277009498 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 243277009499 C-terminal domain interface [polypeptide binding]; other site 243277009500 GSH binding site (G-site) [chemical binding]; other site 243277009501 dimer interface [polypeptide binding]; other site 243277009502 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 243277009503 N-terminal domain interface [polypeptide binding]; other site 243277009504 putative dimer interface [polypeptide binding]; other site 243277009505 active site 243277009506 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 243277009507 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 243277009508 putative C-terminal domain interface [polypeptide binding]; other site 243277009509 putative GSH binding site (G-site) [chemical binding]; other site 243277009510 putative dimer interface [polypeptide binding]; other site 243277009511 C-terminal, alpha helical domain of GTT2-like Glutathione S-transferases; Region: GST_C_GTT2_like; cd03182 243277009512 putative N-terminal domain interface [polypeptide binding]; other site 243277009513 putative dimer interface [polypeptide binding]; other site 243277009514 putative substrate binding pocket (H-site) [chemical binding]; other site 243277009515 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 243277009516 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277009517 Domain of unknown function (DUF296); Region: DUF296; cl00720 243277009518 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 243277009519 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 243277009520 Walker A/P-loop; other site 243277009521 ATP binding site [chemical binding]; other site 243277009522 Q-loop/lid; other site 243277009523 ABC transporter signature motif; other site 243277009524 Walker B; other site 243277009525 D-loop; other site 243277009526 H-loop/switch region; other site 243277009527 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 243277009528 Walker A/P-loop; other site 243277009529 ATP binding site [chemical binding]; other site 243277009530 Q-loop/lid; other site 243277009531 ABC transporter signature motif; other site 243277009532 Walker B; other site 243277009533 D-loop; other site 243277009534 H-loop/switch region; other site 243277009535 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 243277009536 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 243277009537 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 243277009538 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277009539 dimer interface [polypeptide binding]; other site 243277009540 conserved gate region; other site 243277009541 putative PBP binding loops; other site 243277009542 ABC-ATPase subunit interface; other site 243277009543 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 243277009544 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277009545 dimer interface [polypeptide binding]; other site 243277009546 conserved gate region; other site 243277009547 putative PBP binding loops; other site 243277009548 ABC-ATPase subunit interface; other site 243277009549 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 243277009550 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 243277009551 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_27; cd04686 243277009552 nudix motif; other site 243277009553 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 243277009554 Domain of unknown function (DUF333); Region: DUF333; pfam03891 243277009555 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 243277009556 putative active site [active] 243277009557 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 243277009558 EamA-like transporter family; Region: EamA; cl01037 243277009559 transcriptional regulator protein; Region: phnR; TIGR03337 243277009560 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 243277009561 DNA-binding site [nucleotide binding]; DNA binding site 243277009562 UTRA domain; Region: UTRA; cl01230 243277009563 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 243277009564 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277009565 dimer interface [polypeptide binding]; other site 243277009566 conserved gate region; other site 243277009567 putative PBP binding loops; other site 243277009568 ABC-ATPase subunit interface; other site 243277009569 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277009570 dimer interface [polypeptide binding]; other site 243277009571 conserved gate region; other site 243277009572 putative PBP binding loops; other site 243277009573 ABC-ATPase subunit interface; other site 243277009574 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 243277009575 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277009576 Walker A/P-loop; other site 243277009577 ATP binding site [chemical binding]; other site 243277009578 Q-loop/lid; other site 243277009579 ABC transporter signature motif; other site 243277009580 Walker B; other site 243277009581 D-loop; other site 243277009582 H-loop/switch region; other site 243277009583 TOBE domain; Region: TOBE_2; cl01440 243277009584 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 243277009585 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate binding protein; Region: PhnS; TIGR03227 243277009586 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 243277009587 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 243277009588 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 243277009589 catalytic residue [active] 243277009590 4-aminobutyrate aminotransferase; Provisional; Region: PRK06082 243277009591 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 243277009592 inhibitor-cofactor binding pocket; inhibition site 243277009593 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243277009594 catalytic residue [active] 243277009595 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 243277009596 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 243277009597 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 243277009598 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 243277009599 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 243277009600 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 243277009601 motif II; other site 243277009602 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 243277009603 conserved cys residue [active] 243277009604 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 243277009605 formate--tetrahydrofolate ligase; Provisional; Region: PRK13506 243277009606 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 243277009607 Potassium binding sites [ion binding]; other site 243277009608 Cesium cation binding sites [ion binding]; other site 243277009609 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 243277009610 SelR domain; Region: SelR; cl00369 243277009611 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 243277009612 homodecamer interface [polypeptide binding]; other site 243277009613 GTP cyclohydrolase I; Provisional; Region: PLN03044 243277009614 active site 243277009615 putative catalytic site residues [active] 243277009616 zinc binding site [ion binding]; other site 243277009617 GTP-CH-I/GFRP interaction surface; other site 243277009618 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 243277009619 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 243277009620 dimer interface [polypeptide binding]; other site 243277009621 putative functional site; other site 243277009622 putative MPT binding site; other site 243277009623 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 243277009624 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 243277009625 ATP binding site [chemical binding]; other site 243277009626 substrate interface [chemical binding]; other site 243277009627 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_17; cd08356 243277009628 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 243277009629 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 243277009630 active site residue [active] 243277009631 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 243277009632 active site residue [active] 243277009633 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 243277009634 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 243277009635 transaldolase-like protein; Provisional; Region: PTZ00411 243277009636 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 243277009637 active site 243277009638 dimer interface [polypeptide binding]; other site 243277009639 catalytic residue [active] 243277009640 transketolase; Reviewed; Region: PRK12753 243277009641 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 243277009642 TPP-binding site [chemical binding]; other site 243277009643 dimer interface [polypeptide binding]; other site 243277009644 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 243277009645 PYR/PP interface [polypeptide binding]; other site 243277009646 dimer interface [polypeptide binding]; other site 243277009647 TPP binding site [chemical binding]; other site 243277009648 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 243277009649 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 243277009650 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 243277009651 N-terminal plug; other site 243277009652 ligand-binding site [chemical binding]; other site 243277009653 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 243277009654 Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]; Region: SecA; COG0653 243277009655 Nuclease-related domain; Region: NERD; pfam08378 243277009656 SEC-C motif; Region: SEC-C; pfam02810 243277009657 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 243277009658 Putative ammonia monooxygenase; Region: AmoA; pfam05145 243277009659 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 243277009660 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 243277009661 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277009662 Predicted acetyltransferase [General function prediction only]; Region: COG3981 243277009663 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277009664 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_32; cd04691 243277009665 nudix motif; other site 243277009666 GlpM protein; Region: GlpM; cl01212 243277009667 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; cl12011 243277009668 Transcriptional regulator [Transcription]; Region: LysR; COG0583 243277009669 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277009670 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 243277009671 putative effector binding pocket; other site 243277009672 dimerization interface [polypeptide binding]; other site 243277009673 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 243277009674 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 243277009675 dimer interface [polypeptide binding]; other site 243277009676 FMN binding site [chemical binding]; other site 243277009677 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 243277009678 Protein export membrane protein; Region: SecD_SecF; cl14618 243277009679 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 243277009680 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 243277009681 YeeE/YedE family (DUF395); Region: DUF395; cl01018 243277009682 YeeE/YedE family (DUF395); Region: DUF395; cl01018 243277009683 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 243277009684 dimerization interface [polypeptide binding]; other site 243277009685 putative DNA binding site [nucleotide binding]; other site 243277009686 putative Zn2+ binding site [ion binding]; other site 243277009687 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 243277009688 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 243277009689 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277009690 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 243277009691 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 243277009692 active site residue [active] 243277009693 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 243277009694 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 243277009695 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 243277009696 putative acyl-acceptor binding pocket; other site 243277009697 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277009698 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 243277009699 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 243277009700 Protein of unknown function (DUF3069); Region: DUF3069; pfam11269 243277009701 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 243277009702 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 243277009703 active site turn [active] 243277009704 phosphorylation site [posttranslational modification] 243277009705 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 243277009706 Transcriptional regulators [Transcription]; Region: PurR; COG1609 243277009707 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 243277009708 DNA binding site [nucleotide binding] 243277009709 domain linker motif; other site 243277009710 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 243277009711 dimerization interface [polypeptide binding]; other site 243277009712 ligand binding site [chemical binding]; other site 243277009713 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 243277009714 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 243277009715 substrate binding [chemical binding]; other site 243277009716 active site 243277009717 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 243277009718 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 243277009719 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 243277009720 putative substrate binding site [chemical binding]; other site 243277009721 putative ATP binding site [chemical binding]; other site 243277009722 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 243277009723 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277009724 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 243277009725 PAS fold; Region: PAS_3; pfam08447 243277009726 putative active site [active] 243277009727 heme pocket [chemical binding]; other site 243277009728 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277009729 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277009730 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 243277009731 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 243277009732 ligand binding site [chemical binding]; other site 243277009733 peptidyl-prolyl isomerase, gliding motility-associated; Region: ppisom_GldI; TIGR03516 243277009734 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 243277009735 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 243277009736 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 243277009737 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 243277009738 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 243277009739 motif II; other site 243277009740 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 243277009741 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277009742 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277009743 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 243277009744 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 243277009745 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 243277009746 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 243277009747 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 243277009748 Sodium:solute symporter family; Region: SSF; cl00456 243277009749 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 243277009750 benzoate transport; Region: 2A0115; TIGR00895 243277009751 putative substrate translocation pore; other site 243277009752 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 243277009753 Transcriptional regulators [Transcription]; Region: PurR; COG1609 243277009754 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 243277009755 DNA binding site [nucleotide binding] 243277009756 domain linker motif; other site 243277009757 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 243277009758 putative dimerization interface [polypeptide binding]; other site 243277009759 putative ligand binding site [chemical binding]; other site 243277009760 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 243277009761 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 243277009762 dimerization interface [polypeptide binding]; other site 243277009763 Histidine kinase; Region: HisKA_3; pfam07730 243277009764 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277009765 ATP binding site [chemical binding]; other site 243277009766 Mg2+ binding site [ion binding]; other site 243277009767 G-X-G motif; other site 243277009768 ferredoxin-type protein; Provisional; Region: PRK10194 243277009769 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 243277009770 4Fe-4S binding domain; Region: Fer4; cl02805 243277009771 NapD protein; Region: NapD; cl01163 243277009772 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 243277009773 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 243277009774 [4Fe-4S] binding site [ion binding]; other site 243277009775 molybdopterin cofactor binding site; other site 243277009776 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 243277009777 molybdopterin cofactor binding site; other site 243277009778 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 243277009779 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 243277009780 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl09485 243277009781 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 243277009782 Zn2+ binding site [ion binding]; other site 243277009783 Mg2+ binding site [ion binding]; other site 243277009784 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 243277009785 Zn2+ binding site [ion binding]; other site 243277009786 Mg2+ binding site [ion binding]; other site 243277009787 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 243277009788 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277009789 active site 243277009790 phosphorylation site [posttranslational modification] 243277009791 intermolecular recognition site; other site 243277009792 dimerization interface [polypeptide binding]; other site 243277009793 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 243277009794 DNA binding residues [nucleotide binding] 243277009795 dimerization interface [polypeptide binding]; other site 243277009796 Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]; Region: UhpB; COG3851 243277009797 MASE1; Region: MASE1; pfam05231 243277009798 Histidine kinase; Region: HisKA_3; pfam07730 243277009799 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277009800 ATP binding site [chemical binding]; other site 243277009801 Mg2+ binding site [ion binding]; other site 243277009802 G-X-G motif; other site 243277009803 regulatory protein UhpC; Provisional; Region: PRK11663 243277009804 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 243277009805 putative substrate translocation pore; other site 243277009806 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 243277009807 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 243277009808 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 243277009809 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277009810 dimer interface [polypeptide binding]; other site 243277009811 conserved gate region; other site 243277009812 putative PBP binding loops; other site 243277009813 ABC-ATPase subunit interface; other site 243277009814 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277009815 dimer interface [polypeptide binding]; other site 243277009816 conserved gate region; other site 243277009817 putative PBP binding loops; other site 243277009818 ABC-ATPase subunit interface; other site 243277009819 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 243277009820 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277009821 Walker A/P-loop; other site 243277009822 ATP binding site [chemical binding]; other site 243277009823 Q-loop/lid; other site 243277009824 ABC transporter signature motif; other site 243277009825 Walker B; other site 243277009826 D-loop; other site 243277009827 H-loop/switch region; other site 243277009828 TOBE domain; Region: TOBE_2; cl01440 243277009829 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 243277009830 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 243277009831 Phasin protein; Region: Phasin_2; cl11491 243277009832 putative acyltransferase; Provisional; Region: PRK05790 243277009833 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 243277009834 dimer interface [polypeptide binding]; other site 243277009835 active site 243277009836 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 243277009837 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 243277009838 NAD(P) binding site [chemical binding]; other site 243277009839 homotetramer interface [polypeptide binding]; other site 243277009840 homodimer interface [polypeptide binding]; other site 243277009841 active site 243277009842 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK12933 243277009843 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 243277009844 Protein export membrane protein; Region: SecD_SecF; cl14618 243277009845 PAS fold; Region: PAS; pfam00989 243277009846 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 243277009847 putative active site [active] 243277009848 heme pocket [chemical binding]; other site 243277009849 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277009850 metal binding site [ion binding]; metal-binding site 243277009851 active site 243277009852 I-site; other site 243277009853 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 243277009854 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 243277009855 ligand binding site; other site 243277009856 oligomer interface; other site 243277009857 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 243277009858 dimer interface [polypeptide binding]; other site 243277009859 N-terminal domain interface [polypeptide binding]; other site 243277009860 sulfate 1 binding site; other site 243277009861 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 243277009862 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 243277009863 chitin/cellulose binding site [chemical binding]; other site 243277009864 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 243277009865 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 243277009866 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 243277009867 active site 243277009868 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 243277009869 Chitinase C; Region: ChiC; pfam06483 243277009870 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 243277009871 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 243277009872 dimer interface [polypeptide binding]; other site 243277009873 active site 243277009874 metal binding site [ion binding]; metal-binding site 243277009875 YhhN-like protein; Region: YhhN; cl01505 243277009876 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 243277009877 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277009878 active site 243277009879 phosphorylation site [posttranslational modification] 243277009880 intermolecular recognition site; other site 243277009881 dimerization interface [polypeptide binding]; other site 243277009882 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 243277009883 Walker A motif; other site 243277009884 ATP binding site [chemical binding]; other site 243277009885 Walker B motif; other site 243277009886 arginine finger; other site 243277009887 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277009888 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 243277009889 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 243277009890 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 243277009891 dimer interface [polypeptide binding]; other site 243277009892 phosphorylation site [posttranslational modification] 243277009893 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277009894 ATP binding site [chemical binding]; other site 243277009895 Mg2+ binding site [ion binding]; other site 243277009896 G-X-G motif; other site 243277009897 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 243277009898 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 243277009899 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 243277009900 putative substrate translocation pore; other site 243277009901 pyruvate kinase; Provisional; Region: PRK05826 243277009902 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 243277009903 domain interfaces; other site 243277009904 active site 243277009905 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 243277009906 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 243277009907 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 243277009908 dimer interface [polypeptide binding]; other site 243277009909 phosphorylation site [posttranslational modification] 243277009910 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277009911 ATP binding site [chemical binding]; other site 243277009912 Mg2+ binding site [ion binding]; other site 243277009913 G-X-G motif; other site 243277009914 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277009915 active site 243277009916 phosphorylation site [posttranslational modification] 243277009917 intermolecular recognition site; other site 243277009918 dimerization interface [polypeptide binding]; other site 243277009919 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 243277009920 putative binding surface; other site 243277009921 active site 243277009922 TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria; Region: PBP1_TorT-like; cd06306 243277009923 putative ligand binding site [chemical binding]; other site 243277009924 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 243277009925 active site 243277009926 dimer interfaces [polypeptide binding]; other site 243277009927 catalytic residues [active] 243277009928 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 243277009929 Isochorismatase family; Region: Isochorismatase; pfam00857 243277009930 catalytic triad [active] 243277009931 metal binding site [ion binding]; metal-binding site 243277009932 conserved cis-peptide bond; other site 243277009933 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 243277009934 Uncharacterized conserved protein [Function unknown]; Region: COG5591 243277009935 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 243277009936 DNA helicase IV; Provisional; Region: helD; PRK11054 243277009937 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 243277009938 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277009939 hypothetical membrane protein, TIGR01666; Region: YCCS 243277009940 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 243277009941 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 243277009942 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 243277009943 dimer interface [polypeptide binding]; other site 243277009944 phosphorylation site [posttranslational modification] 243277009945 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277009946 ATP binding site [chemical binding]; other site 243277009947 Mg2+ binding site [ion binding]; other site 243277009948 G-X-G motif; other site 243277009949 Heme NO binding; Region: HNOB; cl15268 243277009950 Class I hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classI; cd00643 243277009951 tetramerization interface [polypeptide binding]; other site 243277009952 substrate binding pocket [chemical binding]; other site 243277009953 catalytic residues [active] 243277009954 inhibitor binding sites; inhibition site 243277009955 NADP(H) binding site [chemical binding]; other site 243277009956 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277009957 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 243277009958 Walker A/P-loop; other site 243277009959 ATP binding site [chemical binding]; other site 243277009960 Q-loop/lid; other site 243277009961 ABC transporter signature motif; other site 243277009962 Walker B; other site 243277009963 D-loop; other site 243277009964 H-loop/switch region; other site 243277009965 TOBE domain; Region: TOBE_2; cl01440 243277009966 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277009967 dimer interface [polypeptide binding]; other site 243277009968 conserved gate region; other site 243277009969 putative PBP binding loops; other site 243277009970 ABC-ATPase subunit interface; other site 243277009971 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 243277009972 cobyric acid synthase; Provisional; Region: PRK00784 243277009973 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277009974 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277009975 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 243277009976 catalytic triad [active] 243277009977 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 243277009978 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277009979 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277009980 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 243277009981 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 243277009982 Flagellar protein YcgR; Region: YcgR_2; pfam12945 243277009983 PilZ domain; Region: PilZ; cl01260 243277009984 LuxQ, periplasmic; Region: LuxQ-periplasm; pfam09308 243277009985 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 243277009986 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 243277009987 dimer interface [polypeptide binding]; other site 243277009988 phosphorylation site [posttranslational modification] 243277009989 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277009990 ATP binding site [chemical binding]; other site 243277009991 Mg2+ binding site [ion binding]; other site 243277009992 G-X-G motif; other site 243277009993 Response regulator receiver domain; Region: Response_reg; pfam00072 243277009994 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277009995 active site 243277009996 phosphorylation site [posttranslational modification] 243277009997 intermolecular recognition site; other site 243277009998 dimerization interface [polypeptide binding]; other site 243277009999 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 243277010000 Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs; Region: PBP1_LuxPQ_Quorum_Sensing; cd06303 243277010001 ligand binding site [chemical binding]; other site 243277010002 subunit interaction site [polypeptide binding]; other site 243277010003 calcium binding site [ion binding]; other site 243277010004 Uncharacterized conserved protein [Function unknown]; Region: COG5613 243277010005 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 243277010006 GIY-YIG motif/motif A; other site 243277010007 putative active site [active] 243277010008 putative metal binding site [ion binding]; other site 243277010009 Protein of unknown function, DUF480; Region: DUF480; cl01209 243277010010 Protein of unknown function (DUF496); Region: DUF496; cl09955 243277010011 glycerol kinase; Provisional; Region: glpK; PRK00047 243277010012 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 243277010013 N- and C-terminal domain interface [polypeptide binding]; other site 243277010014 active site 243277010015 MgATP binding site [chemical binding]; other site 243277010016 catalytic site [active] 243277010017 metal binding site [ion binding]; metal-binding site 243277010018 glycerol binding site [chemical binding]; other site 243277010019 homotetramer interface [polypeptide binding]; other site 243277010020 homodimer interface [polypeptide binding]; other site 243277010021 FBP binding site [chemical binding]; other site 243277010022 protein IIAGlc interface [polypeptide binding]; other site 243277010023 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 243277010024 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277010025 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 243277010026 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 243277010027 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl10040 243277010028 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 243277010029 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 243277010030 Cysteine-rich domain; Region: CCG; pfam02754 243277010031 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 243277010032 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 243277010033 dimer interface [polypeptide binding]; other site 243277010034 active site 243277010035 CoA binding pocket [chemical binding]; other site 243277010036 thioredoxin 2; Provisional; Region: PRK10996 243277010037 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 243277010038 catalytic residues [active] 243277010039 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 243277010040 Major Facilitator Superfamily; Region: MFS_1; pfam07690 243277010041 putative substrate translocation pore; other site 243277010042 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 243277010043 active site flap/lid [active] 243277010044 nucleophilic elbow; other site 243277010045 catalytic triad [active] 243277010046 Transcriptional regulator [Transcription]; Region: LysR; COG0583 243277010047 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277010048 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 243277010049 dimerization interface [polypeptide binding]; other site 243277010050 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 243277010051 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277010052 dimer interface [polypeptide binding]; other site 243277010053 conserved gate region; other site 243277010054 putative PBP binding loops; other site 243277010055 ABC-ATPase subunit interface; other site 243277010056 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 243277010057 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277010058 dimer interface [polypeptide binding]; other site 243277010059 conserved gate region; other site 243277010060 putative PBP binding loops; other site 243277010061 ABC-ATPase subunit interface; other site 243277010062 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 243277010063 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 243277010064 substrate binding pocket [chemical binding]; other site 243277010065 membrane-bound complex binding site; other site 243277010066 hinge residues; other site 243277010067 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 243277010068 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 243277010069 Walker A/P-loop; other site 243277010070 ATP binding site [chemical binding]; other site 243277010071 Q-loop/lid; other site 243277010072 ABC transporter signature motif; other site 243277010073 Walker B; other site 243277010074 D-loop; other site 243277010075 H-loop/switch region; other site 243277010076 hypothetical protein; Provisional; Region: yieM; PRK10997 243277010077 VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: VWA_YIEM_type; cd01462 243277010078 metal ion-dependent adhesion site (MIDAS); other site 243277010079 regulatory ATPase RavA; Provisional; Region: PRK13531 243277010080 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 243277010081 Walker A motif; other site 243277010082 ATP binding site [chemical binding]; other site 243277010083 Walker B motif; other site 243277010084 arginine finger; other site 243277010085 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 243277010086 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 243277010087 dimer interface [polypeptide binding]; other site 243277010088 ADP-ribose binding site [chemical binding]; other site 243277010089 active site 243277010090 nudix motif; other site 243277010091 metal binding site [ion binding]; metal-binding site 243277010092 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 243277010093 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 243277010094 tetramer interface [polypeptide binding]; other site 243277010095 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243277010096 catalytic residue [active] 243277010097 Cytochrome c; Region: Cytochrom_C; cl11414 243277010098 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 243277010099 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277010100 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 243277010101 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 243277010102 ATP binding site [chemical binding]; other site 243277010103 Mg++ binding site [ion binding]; other site 243277010104 motif III; other site 243277010105 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 243277010106 nucleotide binding region [chemical binding]; other site 243277010107 ATP-binding site [chemical binding]; other site 243277010108 Protein of unknown function, DUF479; Region: DUF479; cl01203 243277010109 Amino acid permease; Region: AA_permease; cl00524 243277010110 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 243277010111 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277010112 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277010113 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 243277010114 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 243277010115 NAD binding site [chemical binding]; other site 243277010116 homodimer interface [polypeptide binding]; other site 243277010117 active site 243277010118 substrate binding site [chemical binding]; other site 243277010119 LamB/YcsF family; Region: LamB_YcsF; cl00664 243277010120 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 243277010121 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 243277010122 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 243277010123 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 243277010124 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277010125 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 243277010126 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277010127 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 243277010128 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 243277010129 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 243277010130 Walker A/P-loop; other site 243277010131 ATP binding site [chemical binding]; other site 243277010132 Q-loop/lid; other site 243277010133 ABC transporter signature motif; other site 243277010134 Walker B; other site 243277010135 D-loop; other site 243277010136 H-loop/switch region; other site 243277010137 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 243277010138 active site 243277010139 catalytic triad [active] 243277010140 oxyanion hole [active] 243277010141 switch loop; other site 243277010142 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 243277010143 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 243277010144 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277010145 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 243277010146 GAF domain; Region: GAF; cl00853 243277010147 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 243277010148 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 243277010149 Predicted ATPase of the ABC class [General function prediction only]; Region: COG3044 243277010150 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 243277010151 Walker A/P-loop; other site 243277010152 ATP binding site [chemical binding]; other site 243277010153 Q-loop/lid; other site 243277010154 ABC transporter signature motif; other site 243277010155 Walker B; other site 243277010156 D-loop; other site 243277010157 H-loop/switch region; other site 243277010158 DNA-J related protein; Region: DNAJ_related; pfam12339 243277010159 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 243277010160 HSP70 interaction site [polypeptide binding]; other site 243277010161 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 243277010162 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 243277010163 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 243277010164 putative transposase OrfB; Reviewed; Region: PHA02517 243277010165 Integrase core domain; Region: rve; cl01316 243277010166 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277010167 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 243277010168 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 243277010169 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 243277010170 catalytic residues [active] 243277010171 catalytic nucleophile [active] 243277010172 Presynaptic Site I dimer interface [polypeptide binding]; other site 243277010173 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 243277010174 Synaptic Flat tetramer interface [polypeptide binding]; other site 243277010175 Synaptic Site I dimer interface [polypeptide binding]; other site 243277010176 DNA binding site [nucleotide binding] 243277010177 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 243277010178 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 243277010179 active site 243277010180 motif I; other site 243277010181 motif II; other site 243277010182 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 243277010183 CreA protein; Region: CreA; pfam05981 243277010184 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 243277010185 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 243277010186 substrate binding site [chemical binding]; other site 243277010187 ATP binding site [chemical binding]; other site 243277010188 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 243277010189 Sulfatase; Region: Sulfatase; cl10460 243277010190 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cd00190 243277010191 cleavage site 243277010192 active site 243277010193 substrate binding sites [chemical binding]; other site 243277010194 helicase 45; Provisional; Region: PTZ00424 243277010195 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 243277010196 ATP binding site [chemical binding]; other site 243277010197 Mg++ binding site [ion binding]; other site 243277010198 motif III; other site 243277010199 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 243277010200 nucleotide binding region [chemical binding]; other site 243277010201 ATP-binding site [chemical binding]; other site 243277010202 DbpA RNA binding domain; Region: DbpA; pfam03880 243277010203 exoribonuclease II; Provisional; Region: PRK05054 243277010204 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 243277010205 RNB domain; Region: RNB; pfam00773 243277010206 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 243277010207 Protein of unknown function (DUF3024); Region: DUF3024; pfam11225 243277010208 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 243277010209 dimerization interface [polypeptide binding]; other site 243277010210 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 243277010211 putative active site [active] 243277010212 putative catalytic site [active] 243277010213 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 243277010214 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 243277010215 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 243277010216 N-acetylglucosamine-binding protein A; Reviewed; Region: PRK13211 243277010217 Chitin binding domain; Region: Chitin_bind_3; cl03871 243277010218 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 243277010219 Arginase family; Region: Arginase; cl00306 243277010220 arginine decarboxylase; Provisional; Region: PRK05354 243277010221 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 243277010222 dimer interface [polypeptide binding]; other site 243277010223 active site 243277010224 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 243277010225 catalytic residues [active] 243277010226 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 243277010227 Mechanosensitive ion channel; Region: MS_channel; pfam00924 243277010228 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 243277010229 MgtE intracellular N domain; Region: MgtE_N; cl15244 243277010230 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 243277010231 Divalent cation transporter; Region: MgtE; cl00786 243277010232 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 243277010233 oligomerisation interface [polypeptide binding]; other site 243277010234 mobile loop; other site 243277010235 roof hairpin; other site 243277010236 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 243277010237 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 243277010238 ring oligomerisation interface [polypeptide binding]; other site 243277010239 ATP/Mg binding site [chemical binding]; other site 243277010240 stacking interactions; other site 243277010241 hinge regions; other site 243277010242 aspartate kinase; Validated; Region: PRK09181 243277010243 AAK_AK-Ectoine: Amino Acid Kinase Superfamily (AAK), AK-Ectoine; this CD includes the N-terminal catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium...; Region: AAK_AK-Ectoine; cd04248 243277010244 putative catalytic residues [active] 243277010245 putative nucleotide binding site [chemical binding]; other site 243277010246 putative aspartate binding site [chemical binding]; other site 243277010247 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 243277010248 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_2; cd04915 243277010249 Cupin domain; Region: Cupin_2; cl09118 243277010250 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 243277010251 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 243277010252 inhibitor-cofactor binding pocket; inhibition site 243277010253 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243277010254 catalytic residue [active] 243277010255 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 243277010256 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277010257 Coenzyme A binding pocket [chemical binding]; other site 243277010258 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 243277010259 aromatic arch; other site 243277010260 DCoH dimer interaction site [polypeptide binding]; other site 243277010261 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 243277010262 DCoH tetramer interaction site [polypeptide binding]; other site 243277010263 substrate binding site [chemical binding]; other site 243277010264 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 243277010265 cofactor binding site; other site 243277010266 metal binding site [ion binding]; metal-binding site 243277010267 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 243277010268 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 243277010269 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 243277010270 Transcriptional regulator [Transcription]; Region: LysR; COG0583 243277010271 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277010272 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 243277010273 substrate binding pocket [chemical binding]; other site 243277010274 dimerization interface [polypeptide binding]; other site 243277010275 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 243277010276 S-adenosylmethionine binding site [chemical binding]; other site 243277010277 Transcriptional regulator [Transcription]; Region: LysR; COG0583 243277010278 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277010279 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 243277010280 dimerization interface [polypeptide binding]; other site 243277010281 Cation efflux family; Region: Cation_efflux; cl00316 243277010282 aromatic amino acid exporter; Provisional; Region: PRK11689 243277010283 maltose O-acetyltransferase; Provisional; Region: PRK10092 243277010284 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 243277010285 active site 243277010286 substrate binding site [chemical binding]; other site 243277010287 trimer interface [polypeptide binding]; other site 243277010288 CoA binding site [chemical binding]; other site 243277010289 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 243277010290 Domain of unknown function DUF21; Region: DUF21; pfam01595 243277010291 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 243277010292 Transporter associated domain; Region: CorC_HlyC; cl08393 243277010293 OsmC-like protein; Region: OsmC; cl00767 243277010294 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 243277010295 catalytic motif [active] 243277010296 Zn binding site [ion binding]; other site 243277010297 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 243277010298 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 243277010299 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 243277010300 LysE type translocator; Region: LysE; cl00565 243277010301 Amino acid permease; Region: AA_permease; cl00524 243277010302 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277010303 metal binding site [ion binding]; metal-binding site 243277010304 active site 243277010305 I-site; other site 243277010306 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 243277010307 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 243277010308 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 243277010309 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 243277010310 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 243277010311 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 243277010312 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 243277010313 type 1 secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 243277010314 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 243277010315 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277010316 active site 243277010317 phosphorylation site [posttranslational modification] 243277010318 intermolecular recognition site; other site 243277010319 dimerization interface [polypeptide binding]; other site 243277010320 LytTr DNA-binding domain; Region: LytTR; cl04498 243277010321 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 243277010322 Histidine kinase; Region: His_kinase; pfam06580 243277010323 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277010324 ATP binding site [chemical binding]; other site 243277010325 Mg2+ binding site [ion binding]; other site 243277010326 G-X-G motif; other site 243277010327 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 243277010328 FtsX-like permease family; Region: FtsX; pfam02687 243277010329 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 243277010330 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 243277010331 Walker A/P-loop; other site 243277010332 ATP binding site [chemical binding]; other site 243277010333 Q-loop/lid; other site 243277010334 ABC transporter signature motif; other site 243277010335 Walker B; other site 243277010336 D-loop; other site 243277010337 H-loop/switch region; other site 243277010338 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 243277010339 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 243277010340 active site 243277010341 catalytic tetrad [active] 243277010342 alpha-amylase; Reviewed; Region: malS; PRK09505 243277010343 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 243277010344 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 243277010345 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 243277010346 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 243277010347 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 243277010348 PAS fold; Region: PAS_3; pfam08447 243277010349 putative active site [active] 243277010350 heme pocket [chemical binding]; other site 243277010351 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 243277010352 PAS fold; Region: PAS_3; pfam08447 243277010353 putative active site [active] 243277010354 heme pocket [chemical binding]; other site 243277010355 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277010356 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 243277010357 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 243277010358 Peptidase propeptide and YPEB domain; Region: PepSY; cl15480 243277010359 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 243277010360 active site 243277010361 Zn binding site [ion binding]; other site 243277010362 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 243277010363 Surface antigen; Region: Surface_Ag_2; cl01155 243277010364 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 243277010365 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 243277010366 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 243277010367 DNA-binding site [nucleotide binding]; DNA binding site 243277010368 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 243277010369 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243277010370 homodimer interface [polypeptide binding]; other site 243277010371 catalytic residue [active] 243277010372 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 243277010373 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 243277010374 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 243277010375 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 243277010376 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 243277010377 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 243277010378 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 243277010379 catalytic residue [active] 243277010380 D-serine deaminase transcriptional activator; Region: dsdC; TIGR02036 243277010381 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277010382 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 243277010383 dimerization interface [polypeptide binding]; other site 243277010384 substrate binding pocket [chemical binding]; other site 243277010385 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 243277010386 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 243277010387 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 243277010388 Bacillus haemolytic enterotoxin (HBL); Region: Bacillus_HBL; pfam05791 243277010389 Apolipoprotein L; Region: ApoL; pfam05461 243277010390 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 243277010391 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 243277010392 NAD(P) binding site [chemical binding]; other site 243277010393 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 243277010394 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 243277010395 substrate-cofactor binding pocket; other site 243277010396 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243277010397 catalytic residue [active] 243277010398 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 243277010399 Autoinducer binding domain; Region: Autoind_bind; pfam03472 243277010400 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 243277010401 DNA binding residues [nucleotide binding] 243277010402 dimerization interface [polypeptide binding]; other site 243277010403 Transcriptional regulator [Transcription]; Region: LysR; COG0583 243277010404 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277010405 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 243277010406 putative effector binding pocket; other site 243277010407 dimerization interface [polypeptide binding]; other site 243277010408 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_1; cd08352 243277010409 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 243277010410 putative metal binding site [ion binding]; other site 243277010411 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 243277010412 PepSY-associated TM helix; Region: PepSY_TM; pfam03929 243277010413 Cytochrome b562; Region: Cytochrom_B562; cl01546 243277010414 putative hydrolase; Validated; Region: PRK09248 243277010415 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 243277010416 RNase P subunit p30; Region: RNase_P_p30; cl03389 243277010417 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 243277010418 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 243277010419 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 243277010420 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 243277010421 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 243277010422 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 243277010423 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 243277010424 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 243277010425 putative active site [active] 243277010426 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277010427 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 243277010428 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 243277010429 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 243277010430 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 243277010431 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 243277010432 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 243277010433 catalytic residues [active] 243277010434 Glycerate kinase family; Region: Gly_kinase; cl00841 243277010435 GntP family permease; Region: GntP_permease; cl15264 243277010436 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 243277010437 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 243277010438 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277010439 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 243277010440 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277010441 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 243277010442 ChuX-like family; Region: DUF1008; cl01509 243277010443 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 243277010444 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 243277010445 FeS/SAM binding site; other site 243277010446 HemN C-terminal region; Region: HemN_C; pfam06969 243277010447 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 243277010448 Gram-negative bacterial tonB protein; Region: TonB; cl10048 243277010449 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 243277010450 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 243277010451 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 243277010452 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 243277010453 putative hemin binding site; other site 243277010454 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 243277010455 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 243277010456 ABC-ATPase subunit interface; other site 243277010457 dimer interface [polypeptide binding]; other site 243277010458 putative PBP binding regions; other site 243277010459 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 243277010460 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 243277010461 Walker A/P-loop; other site 243277010462 ATP binding site [chemical binding]; other site 243277010463 Q-loop/lid; other site 243277010464 ABC transporter signature motif; other site 243277010465 Walker B; other site 243277010466 D-loop; other site 243277010467 H-loop/switch region; other site 243277010468 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 243277010469 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277010470 Protein of unknown function (DUF406); Region: DUF406; cl11449 243277010471 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 243277010472 putative acyl-acceptor binding pocket; other site 243277010473 Vibrio chemotaxis protein N terminus; Region: MCP_N; pfam05581 243277010474 Cache domain; Region: Cache_1; pfam02743 243277010475 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 243277010476 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277010477 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277010478 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 243277010479 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 243277010480 MOSC domain; Region: MOSC; pfam03473 243277010481 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 243277010482 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 243277010483 FAD binding pocket [chemical binding]; other site 243277010484 FAD binding motif [chemical binding]; other site 243277010485 phosphate binding motif [ion binding]; other site 243277010486 beta-alpha-beta structure motif; other site 243277010487 NAD binding pocket [chemical binding]; other site 243277010488 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 243277010489 catalytic loop [active] 243277010490 iron binding site [ion binding]; other site 243277010491 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 243277010492 active site 243277010493 substrate binding pocket [chemical binding]; other site 243277010494 dimer interface [polypeptide binding]; other site 243277010495 Helix-turn-helix domain; Region: HTH_18; pfam12833 243277010496 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 243277010497 Protein of unknown function (DUF805); Region: DUF805; cl01224 243277010498 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 243277010499 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 243277010500 S-adenosylmethionine binding site [chemical binding]; other site 243277010501 Protein of unknown function (DUF808); Region: DUF808; cl01002 243277010502 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 243277010503 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 243277010504 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 243277010505 Zn2+ binding site [ion binding]; other site 243277010506 Mg2+ binding site [ion binding]; other site 243277010507 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 243277010508 DNA-binding site [nucleotide binding]; DNA binding site 243277010509 RNA-binding motif; other site 243277010510 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 243277010511 putative active site [active] 243277010512 Zn binding site [ion binding]; other site 243277010513 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 243277010514 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 243277010515 PAS fold; Region: PAS_4; pfam08448 243277010516 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277010517 metal binding site [ion binding]; metal-binding site 243277010518 active site 243277010519 I-site; other site 243277010520 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 243277010521 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277010522 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 243277010523 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 243277010524 ABC-type maltose transport systems, permease component [Carbohydrate transport and metabolism]; Region: MalG; COG3833 243277010525 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277010526 dimer interface [polypeptide binding]; other site 243277010527 conserved gate region; other site 243277010528 putative PBP binding loops; other site 243277010529 ABC-ATPase subunit interface; other site 243277010530 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277010531 dimer interface [polypeptide binding]; other site 243277010532 conserved gate region; other site 243277010533 putative PBP binding loops; other site 243277010534 ABC-ATPase subunit interface; other site 243277010535 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 243277010536 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 243277010537 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 243277010538 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 243277010539 Walker A/P-loop; other site 243277010540 ATP binding site [chemical binding]; other site 243277010541 Q-loop/lid; other site 243277010542 ABC transporter signature motif; other site 243277010543 Walker B; other site 243277010544 D-loop; other site 243277010545 H-loop/switch region; other site 243277010546 TOBE domain; Region: TOBE_2; cl01440 243277010547 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 243277010548 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 243277010549 Coenzyme A binding pocket [chemical binding]; other site 243277010550 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; cl09210 243277010551 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 243277010552 Domain of unknown function (DUF74); Region: DUF74; cl00426 243277010553 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 243277010554 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 243277010555 DNA binding residues [nucleotide binding] 243277010556 dimerization interface [polypeptide binding]; other site 243277010557 PPIC-type PPIASE domain; Region: Rotamase; cl08278 243277010558 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 243277010559 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 243277010560 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277010561 active site 243277010562 phosphorylation site [posttranslational modification] 243277010563 intermolecular recognition site; other site 243277010564 dimerization interface [polypeptide binding]; other site 243277010565 Transcriptional regulators [Transcription]; Region: MarR; COG1846 243277010566 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277010567 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277010568 metal binding site [ion binding]; metal-binding site 243277010569 active site 243277010570 I-site; other site 243277010571 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 243277010572 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 243277010573 non-specific DNA binding site [nucleotide binding]; other site 243277010574 salt bridge; other site 243277010575 sequence-specific DNA binding site [nucleotide binding]; other site 243277010576 Protein of unknown function (DUF3612); Region: DUF3612; pfam12268 243277010577 CHASE domain; Region: CHASE; cl01369 243277010578 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277010579 metal binding site [ion binding]; metal-binding site 243277010580 active site 243277010581 I-site; other site 243277010582 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 243277010583 Domain of unknown function (DUF3541); Region: DUF3541; pfam12060 243277010584 EamA-like transporter family; Region: EamA; cl01037 243277010585 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 243277010586 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277010587 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 243277010588 dimerization interface [polypeptide binding]; other site 243277010589 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277010590 metal binding site [ion binding]; metal-binding site 243277010591 active site 243277010592 I-site; other site 243277010593 Pirin-related protein [General function prediction only]; Region: COG1741 243277010594 Cupin domain; Region: Cupin_2; cl09118 243277010595 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 243277010596 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 243277010597 Protein of unknown function (DUF2850); Region: DUF2850; pfam11012 243277010598 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 243277010599 Major Facilitator Superfamily; Region: MFS_1; pfam07690 243277010600 putative substrate translocation pore; other site 243277010601 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 243277010602 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277010603 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277010604 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 243277010605 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 243277010606 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 243277010607 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 243277010608 Walker A/P-loop; other site 243277010609 ATP binding site [chemical binding]; other site 243277010610 Q-loop/lid; other site 243277010611 ABC transporter signature motif; other site 243277010612 Walker B; other site 243277010613 D-loop; other site 243277010614 H-loop/switch region; other site 243277010615 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 243277010616 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 243277010617 Walker A/P-loop; other site 243277010618 ATP binding site [chemical binding]; other site 243277010619 Q-loop/lid; other site 243277010620 ABC transporter signature motif; other site 243277010621 Walker B; other site 243277010622 D-loop; other site 243277010623 H-loop/switch region; other site 243277010624 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 243277010625 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 243277010626 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 243277010627 substrate binding pocket [chemical binding]; other site 243277010628 membrane-bound complex binding site; other site 243277010629 hinge residues; other site 243277010630 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277010631 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277010632 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl15306 243277010633 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 243277010634 substrate binding pocket [chemical binding]; other site 243277010635 membrane-bound complex binding site; other site 243277010636 hinge residues; other site 243277010637 Transcriptional regulator [Transcription]; Region: LysR; COG0583 243277010638 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277010639 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 243277010640 putative effector binding pocket; other site 243277010641 dimerization interface [polypeptide binding]; other site 243277010642 L-lactate permease; Region: Lactate_perm; cl00701 243277010643 glycolate transporter; Provisional; Region: PRK09695 243277010644 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 243277010645 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 243277010646 active site 243277010647 substrate binding site [chemical binding]; other site 243277010648 FMN binding site [chemical binding]; other site 243277010649 putative catalytic residues [active] 243277010650 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 243277010651 FAD binding domain; Region: FAD_binding_4; pfam01565 243277010652 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 243277010653 Domain of unknown function (DUF299); Region: DUF299; cl00780 243277010654 phosphoenolpyruvate synthase; Validated; Region: PRK06464 243277010655 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 243277010656 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 243277010657 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 243277010658 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 243277010659 PAS fold; Region: PAS_3; pfam08447 243277010660 putative active site [active] 243277010661 heme pocket [chemical binding]; other site 243277010662 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277010663 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277010664 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 243277010665 MatE; Region: MatE; cl10513 243277010666 MatE; Region: MatE; cl10513 243277010667 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 243277010668 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 243277010669 ATP binding site [chemical binding]; other site 243277010670 Mg++ binding site [ion binding]; other site 243277010671 motif III; other site 243277010672 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 243277010673 nucleotide binding region [chemical binding]; other site 243277010674 ATP-binding site [chemical binding]; other site 243277010675 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277010676 transcriptional activator TtdR; Provisional; Region: PRK09801 243277010677 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 243277010678 putative effector binding pocket; other site 243277010679 dimerization interface [polypeptide binding]; other site 243277010680 Glutaredoxin 2 [Posttranslational modification, protein turnover, chaperones]; Region: GrxB; COG2999 243277010681 GST_N family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD, compared with other GRXs which are 9-12kD in size. GRX2 adopts a GST fold containing an N-terminal...; Region: GST_N_GRX2; cd03037 243277010682 C-terminal domain interface [polypeptide binding]; other site 243277010683 GSH binding site (G-site) [chemical binding]; other site 243277010684 catalytic residues [active] 243277010685 putative dimer interface [polypeptide binding]; other site 243277010686 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 243277010687 dimer interface [polypeptide binding]; other site 243277010688 substrate binding pocket (H-site) [chemical binding]; other site 243277010689 N-terminal domain interface [polypeptide binding]; other site 243277010690 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 243277010691 FMN binding site [chemical binding]; other site 243277010692 active site 243277010693 substrate binding site [chemical binding]; other site 243277010694 catalytic residue [active] 243277010695 Amidinotransferase; Region: Amidinotransf; cl12043 243277010696 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 243277010697 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 243277010698 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 243277010699 Walker A/P-loop; other site 243277010700 ATP binding site [chemical binding]; other site 243277010701 Q-loop/lid; other site 243277010702 ABC transporter signature motif; other site 243277010703 Walker B; other site 243277010704 D-loop; other site 243277010705 H-loop/switch region; other site 243277010706 Protein of unknown function (DUF445); Region: DUF445; pfam04286 243277010707 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 243277010708 FMN binding site [chemical binding]; other site 243277010709 active site 243277010710 substrate binding site [chemical binding]; other site 243277010711 catalytic residue [active] 243277010712 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 243277010713 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277010714 LysE type translocator; Region: LysE; cl00565 243277010715 Cupin domain; Region: Cupin_2; cl09118 243277010716 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 243277010717 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 243277010718 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 243277010719 AzlC protein; Region: AzlC; cl00570 243277010720 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 243277010721 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 243277010722 Transcriptional regulators [Transcription]; Region: MarR; COG1846 243277010723 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277010724 OsmC-like protein; Region: OsmC; cl00767 243277010725 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 243277010726 trimer interface [polypeptide binding]; other site 243277010727 eyelet of channel; other site 243277010728 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 243277010729 EamA-like transporter family; Region: EamA; cl01037 243277010730 EamA-like transporter family; Region: EamA; cl01037 243277010731 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 243277010732 GSH binding site [chemical binding]; other site 243277010733 catalytic residues [active] 243277010734 Nucleoside recognition; Region: Gate; cl00486 243277010735 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 243277010736 Nucleoside recognition; Region: Gate; cl00486 243277010737 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 243277010738 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 243277010739 transmembrane helices; other site 243277010740 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 243277010741 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 243277010742 DNA binding site [nucleotide binding] 243277010743 active site 243277010744 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 243277010745 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 243277010746 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 243277010747 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 243277010748 AlkA N-terminal domain; Region: AlkA_N; cl05528 243277010749 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 243277010750 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 243277010751 DoxX; Region: DoxX; cl00976 243277010752 transcriptional regulator HdfR; Provisional; Region: PRK03601 243277010753 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277010754 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 243277010755 Protein of unknown function, DUF; Region: DUF413; cl10479 243277010756 N-formylglutamate amidohydrolase; Region: FGase; cl01522 243277010757 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 243277010758 conserved hypothetical protein; Region: QEGLA; TIGR02421 243277010759 Protein of unknown function (DUF3081); Region: DUF3081; pfam11280 243277010760 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 243277010761 active site 243277010762 trimer interface [polypeptide binding]; other site 243277010763 allosteric site; other site 243277010764 active site lid [active] 243277010765 hexamer (dimer of trimers) interface [polypeptide binding]; other site 243277010766 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 243277010767 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 243277010768 Sel1 repeat; Region: Sel1; cl02723 243277010769 Maltose operon periplasmic protein precursor (MalM); Region: MalM; cl11647 243277010770 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 243277010771 trimer interface; other site 243277010772 sugar binding site [chemical binding]; other site 243277010773 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 243277010774 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 243277010775 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 243277010776 Protein of unknown function (DUF2999); Region: DUF2999; pfam11212 243277010777 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 243277010778 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 243277010779 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 243277010780 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 243277010781 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277010782 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277010783 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 243277010784 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 243277010785 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 243277010786 Walker A/P-loop; other site 243277010787 ATP binding site [chemical binding]; other site 243277010788 Q-loop/lid; other site 243277010789 ABC transporter signature motif; other site 243277010790 Walker B; other site 243277010791 D-loop; other site 243277010792 H-loop/switch region; other site 243277010793 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277010794 dimer interface [polypeptide binding]; other site 243277010795 conserved gate region; other site 243277010796 putative PBP binding loops; other site 243277010797 ABC-ATPase subunit interface; other site 243277010798 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 243277010799 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 243277010800 substrate binding pocket [chemical binding]; other site 243277010801 membrane-bound complex binding site; other site 243277010802 hinge residues; other site 243277010803 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 243277010804 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277010805 dimer interface [polypeptide binding]; other site 243277010806 conserved gate region; other site 243277010807 putative PBP binding loops; other site 243277010808 ABC-ATPase subunit interface; other site 243277010809 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 243277010810 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 243277010811 active site 243277010812 substrate binding site [chemical binding]; other site 243277010813 metal binding site [ion binding]; metal-binding site 243277010814 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 243277010815 Peptidase family M23; Region: Peptidase_M23; pfam01551 243277010816 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 243277010817 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 243277010818 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 243277010819 active site 243277010820 P-loop; other site 243277010821 phosphorylation site [posttranslational modification] 243277010822 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 243277010823 active site 243277010824 phosphorylation site [posttranslational modification] 243277010825 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 243277010826 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 243277010827 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 243277010828 Mannitol repressor; Region: MtlR; cl11450 243277010829 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 243277010830 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277010831 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 243277010832 hypothetical protein; Provisional; Region: PRK11770 243277010833 Domain of unknown function (DUF307); Region: DUF307; pfam03733 243277010834 Domain of unknown function (DUF307); Region: DUF307; pfam03733 243277010835 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 243277010836 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 243277010837 active site residue [active] 243277010838 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 243277010839 NAD binding site [chemical binding]; other site 243277010840 substrate binding site [chemical binding]; other site 243277010841 putative active site [active] 243277010842 Transcriptional regulator [Transcription]; Region: LysR; COG0583 243277010843 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277010844 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 243277010845 putative effector binding pocket; other site 243277010846 dimerization interface [polypeptide binding]; other site 243277010847 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 243277010848 dimerization interface [polypeptide binding]; other site 243277010849 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277010850 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277010851 classical (c) SDRs; Region: SDR_c; cd05233 243277010852 NAD(P) binding site [chemical binding]; other site 243277010853 active site 243277010854 Transcriptional regulator [Transcription]; Region: LysR; COG0583 243277010855 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277010856 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 243277010857 putative effector binding pocket; other site 243277010858 dimerization interface [polypeptide binding]; other site 243277010859 Protein of unknown function (DUF358); Region: DUF358; cl00827 243277010860 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 243277010861 Amino acid permease; Region: AA_permease; cl00524 243277010862 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 243277010863 ornithine decarboxylase; Provisional; Region: PRK13578 243277010864 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 243277010865 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 243277010866 homodimer interface [polypeptide binding]; other site 243277010867 pyridoxal 5'-phosphate binding site [chemical binding]; other site 243277010868 catalytic residue [active] 243277010869 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 243277010870 Protein of unknown function (DUF2618); Region: DUF2618; pfam10940 243277010871 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 243277010872 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 243277010873 NAD(P) binding site [chemical binding]; other site 243277010874 catalytic residues [active] 243277010875 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 243277010876 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 243277010877 putative DNA binding site [nucleotide binding]; other site 243277010878 putative Zn2+ binding site [ion binding]; other site 243277010879 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 243277010880 Cache domain; Region: Cache_1; pfam02743 243277010881 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 243277010882 dimerization interface [polypeptide binding]; other site 243277010883 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277010884 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277010885 Sodium:solute symporter family; Region: SSF; cl00456 243277010886 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 243277010887 NAD(P) binding site [chemical binding]; other site 243277010888 catalytic residues [active] 243277010889 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 243277010890 Cupin domain; Region: Cupin_2; cl09118 243277010891 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 243277010892 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 243277010893 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 243277010894 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 243277010895 PEGA domain; Region: PEGA; pfam08308 243277010896 PEGA domain; Region: PEGA; pfam08308 243277010897 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 243277010898 PAS fold; Region: PAS_4; pfam08448 243277010899 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 243277010900 putative active site [active] 243277010901 heme pocket [chemical binding]; other site 243277010902 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 243277010903 DNA binding residues [nucleotide binding] 243277010904 dimerization interface [polypeptide binding]; other site 243277010905 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 243277010906 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 243277010907 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 243277010908 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 243277010909 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 243277010910 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 243277010911 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 243277010912 active site 243277010913 I-site; other site 243277010914 metal binding site [ion binding]; metal-binding site 243277010915 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 243277010916 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39_likeD; cd02421 243277010917 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 243277010918 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 243277010919 ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two...; Region: ABCC_bacteriocin_exporters; cd03245 243277010920 Walker A/P-loop; other site 243277010921 ATP binding site [chemical binding]; other site 243277010922 Q-loop/lid; other site 243277010923 ABC transporter signature motif; other site 243277010924 Walker B; other site 243277010925 D-loop; other site 243277010926 H-loop/switch region; other site 243277010927 Uncharacterized conserved protein [Function unknown]; Region: COG1315 243277010928 Response regulator receiver domain; Region: Response_reg; pfam00072 243277010929 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277010930 active site 243277010931 phosphorylation site [posttranslational modification] 243277010932 intermolecular recognition site; other site 243277010933 dimerization interface [polypeptide binding]; other site 243277010934 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 243277010935 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 243277010936 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 243277010937 anti sigma factor interaction site; other site 243277010938 regulatory phosphorylation site [posttranslational modification]; other site 243277010939 CheD chemotactic sensory transduction; Region: CheD; cl00810 243277010940 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 243277010941 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 243277010942 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; cl12011 243277010943 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 243277010944 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277010945 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 243277010946 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 243277010947 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 243277010948 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 243277010949 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 243277010950 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 243277010951 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 243277010952 putative binding surface; other site 243277010953 active site 243277010954 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 243277010955 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 243277010956 ATP binding site [chemical binding]; other site 243277010957 Mg2+ binding site [ion binding]; other site 243277010958 G-X-G motif; other site 243277010959 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 243277010960 Response regulator receiver domain; Region: Response_reg; pfam00072 243277010961 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277010962 active site 243277010963 phosphorylation site [posttranslational modification] 243277010964 intermolecular recognition site; other site 243277010965 dimerization interface [polypeptide binding]; other site 243277010966 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 243277010967 anti sigma factor interaction site; other site 243277010968 regulatory phosphorylation site [posttranslational modification]; other site 243277010969 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 243277010970 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 243277010971 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 243277010972 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277010973 dimer interface [polypeptide binding]; other site 243277010974 conserved gate region; other site 243277010975 putative PBP binding loops; other site 243277010976 ABC-ATPase subunit interface; other site 243277010977 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 243277010978 dimer interface [polypeptide binding]; other site 243277010979 conserved gate region; other site 243277010980 putative PBP binding loops; other site 243277010981 ABC-ATPase subunit interface; other site 243277010982 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 243277010983 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 243277010984 Walker A/P-loop; other site 243277010985 ATP binding site [chemical binding]; other site 243277010986 Q-loop/lid; other site 243277010987 ABC transporter signature motif; other site 243277010988 Walker B; other site 243277010989 D-loop; other site 243277010990 H-loop/switch region; other site 243277010991 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 243277010992 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 243277010993 Walker A/P-loop; other site 243277010994 ATP binding site [chemical binding]; other site 243277010995 Q-loop/lid; other site 243277010996 ABC transporter signature motif; other site 243277010997 Walker B; other site 243277010998 D-loop; other site 243277010999 H-loop/switch region; other site 243277011000 putative metal dependent hydrolase; Provisional; Region: PRK11598 243277011001 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 243277011002 Sulfatase; Region: Sulfatase; cl10460 243277011003 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 243277011004 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 243277011005 active site 243277011006 phosphorylation site [posttranslational modification] 243277011007 intermolecular recognition site; other site 243277011008 dimerization interface [polypeptide binding]; other site 243277011009 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 243277011010 DNA binding site [nucleotide binding] 243277011011 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 243277011012 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 243277011013 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 243277011014 NAD(P) binding site [chemical binding]; other site 243277011015 active site 243277011016 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 243277011017 heme binding pocket [chemical binding]; other site 243277011018 heme ligand [chemical binding]; other site 243277011019 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 243277011020 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 243277011021 Thermostable hemolysin; Region: T_hemolysin; pfam12261 243277011022 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 243277011023 Putative ATPase (DUF699); Region: DUF699; pfam05127 243277011024 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 243277011025 Coenzyme A binding pocket [chemical binding]; other site 243277011026 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 243277011027 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 243277011028 plasmid-partitioning protein; Provisional; Region: PRK13698 243277011029 ParB-like nuclease domain; Region: ParBc; cl02129 243277011030 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 243277011031 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 243277011032 P-loop; other site 243277011033 Magnesium ion binding site [ion binding]; other site 243277011034 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 243277011035 Magnesium ion binding site [ion binding]; other site