-- dump date 20140619_115801 -- class Genbank::misc_feature -- table misc_feature_note -- id note 283942000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 283942000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 283942000003 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 283942000004 Walker A motif; other site 283942000005 ATP binding site [chemical binding]; other site 283942000006 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 283942000007 Walker B motif; other site 283942000008 arginine finger; other site 283942000009 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 283942000010 DnaA box-binding interface [nucleotide binding]; other site 283942000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 283942000012 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 283942000013 putative DNA binding surface [nucleotide binding]; other site 283942000014 dimer interface [polypeptide binding]; other site 283942000015 beta-clamp/clamp loader binding surface; other site 283942000016 beta-clamp/translesion DNA polymerase binding surface; other site 283942000017 recombination protein F; Reviewed; Region: recF; PRK00064 283942000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 283942000019 Walker A/P-loop; other site 283942000020 ATP binding site [chemical binding]; other site 283942000021 Q-loop/lid; other site 283942000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 283942000023 ABC transporter signature motif; other site 283942000024 Walker B; other site 283942000025 D-loop; other site 283942000026 H-loop/switch region; other site 283942000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 283942000028 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942000029 ATP binding site [chemical binding]; other site 283942000030 Mg2+ binding site [ion binding]; other site 283942000031 G-X-G motif; other site 283942000032 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 283942000033 anchoring element; other site 283942000034 dimer interface [polypeptide binding]; other site 283942000035 ATP binding site [chemical binding]; other site 283942000036 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 283942000037 active site 283942000038 putative metal-binding site [ion binding]; other site 283942000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 283942000040 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 283942000041 DALR anticodon binding domain; Region: DALR_1; pfam05746 283942000042 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 283942000043 dimer interface [polypeptide binding]; other site 283942000044 motif 1; other site 283942000045 active site 283942000046 motif 2; other site 283942000047 motif 3; other site 283942000048 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 283942000049 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 283942000050 Coenzyme A binding pocket [chemical binding]; other site 283942000051 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 283942000052 CPxP motif; other site 283942000053 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 283942000054 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 283942000055 dimer interface [polypeptide binding]; other site 283942000056 active site 283942000057 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 283942000058 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 283942000059 substrate binding site [chemical binding]; other site 283942000060 oxyanion hole (OAH) forming residues; other site 283942000061 trimer interface [polypeptide binding]; other site 283942000062 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 283942000063 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 283942000064 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 283942000065 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 283942000066 N-acetyl-D-glucosamine binding site [chemical binding]; other site 283942000067 catalytic residue [active] 283942000068 proline dipeptidase; Provisional; Region: PRK13607 283942000069 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 283942000070 active site 283942000071 hypothetical protein; Provisional; Region: PRK11568 283942000072 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 283942000073 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 283942000074 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 283942000075 TrkA-N domain; Region: TrkA_N; pfam02254 283942000076 TrkA-C domain; Region: TrkA_C; pfam02080 283942000077 TrkA-N domain; Region: TrkA_N; pfam02254 283942000078 TrkA-C domain; Region: TrkA_C; pfam02080 283942000079 16S rRNA methyltransferase B; Provisional; Region: PRK10901 283942000080 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 283942000081 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 283942000082 S-adenosylmethionine binding site [chemical binding]; other site 283942000083 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 283942000084 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 283942000085 putative active site [active] 283942000086 substrate binding site [chemical binding]; other site 283942000087 putative cosubstrate binding site; other site 283942000088 catalytic site [active] 283942000089 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 283942000090 substrate binding site [chemical binding]; other site 283942000091 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 283942000092 active site 283942000093 catalytic residues [active] 283942000094 metal binding site [ion binding]; metal-binding site 283942000095 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 283942000096 DNA protecting protein DprA; Region: dprA; TIGR00732 283942000097 Protein of unknown function (DUF494); Region: DUF494; pfam04361 283942000098 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 283942000099 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 283942000100 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 283942000101 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 283942000102 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 283942000103 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 283942000104 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 283942000105 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 283942000106 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 283942000107 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 283942000108 NAD(P) binding site [chemical binding]; other site 283942000109 shikimate binding site; other site 283942000110 DNA polymerase I; Provisional; Region: PRK05755 283942000111 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 283942000112 active site 283942000113 metal binding site 1 [ion binding]; metal-binding site 283942000114 putative 5' ssDNA interaction site; other site 283942000115 metal binding site 3; metal-binding site 283942000116 metal binding site 2 [ion binding]; metal-binding site 283942000117 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 283942000118 putative DNA binding site [nucleotide binding]; other site 283942000119 putative metal binding site [ion binding]; other site 283942000120 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 283942000121 active site 283942000122 catalytic site [active] 283942000123 substrate binding site [chemical binding]; other site 283942000124 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 283942000125 active site 283942000126 DNA binding site [nucleotide binding] 283942000127 catalytic site [active] 283942000128 EamA-like transporter family; Region: EamA; pfam00892 283942000129 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 283942000130 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 283942000131 G1 box; other site 283942000132 GTP/Mg2+ binding site [chemical binding]; other site 283942000133 Switch I region; other site 283942000134 G2 box; other site 283942000135 G3 box; other site 283942000136 Switch II region; other site 283942000137 G4 box; other site 283942000138 G5 box; other site 283942000139 Cytochrome c553 [Energy production and conversion]; Region: COG2863 283942000140 Cytochrome c; Region: Cytochrom_C; cl11414 283942000141 Der GTPase activator; Provisional; Region: PRK05244 283942000142 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 283942000143 serine O-acetyltransferase; Region: cysE; TIGR01172 283942000144 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 283942000145 trimer interface [polypeptide binding]; other site 283942000146 active site 283942000147 substrate binding site [chemical binding]; other site 283942000148 CoA binding site [chemical binding]; other site 283942000149 PAS domain; Region: PAS_9; pfam13426 283942000150 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 283942000151 putative active site [active] 283942000152 heme pocket [chemical binding]; other site 283942000153 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 283942000154 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 283942000155 dimer interface [polypeptide binding]; other site 283942000156 putative CheW interface [polypeptide binding]; other site 283942000157 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 283942000158 DNA-binding site [nucleotide binding]; DNA binding site 283942000159 RNA-binding motif; other site 283942000160 Isochorismatase family; Region: Isochorismatase; pfam00857 283942000161 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 283942000162 catalytic triad [active] 283942000163 dimer interface [polypeptide binding]; other site 283942000164 conserved cis-peptide bond; other site 283942000165 AIR carboxylase; Region: AIRC; pfam00731 283942000166 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 283942000167 ATP-grasp domain; Region: ATP-grasp; pfam02222 283942000168 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 283942000169 putative hydrolase; Provisional; Region: PRK11460 283942000170 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 283942000171 Prephenate dehydratase; Region: PDT; pfam00800 283942000172 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 283942000173 putative L-Phe binding site [chemical binding]; other site 283942000174 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 283942000175 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 283942000176 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 283942000177 alanine racemase; Reviewed; Region: alr; PRK00053 283942000178 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 283942000179 active site 283942000180 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 283942000181 substrate binding site [chemical binding]; other site 283942000182 catalytic residues [active] 283942000183 dimer interface [polypeptide binding]; other site 283942000184 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 283942000185 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 283942000186 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 283942000187 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 283942000188 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 283942000189 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 283942000190 Amidohydrolase; Region: Amidohydro_4; pfam13147 283942000191 active site 283942000192 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 283942000193 Beta-lactamase; Region: Beta-lactamase; pfam00144 283942000194 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 283942000195 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 283942000196 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 283942000197 putative C-terminal domain interface [polypeptide binding]; other site 283942000198 putative GSH binding site (G-site) [chemical binding]; other site 283942000199 putative dimer interface [polypeptide binding]; other site 283942000200 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 283942000201 dimer interface [polypeptide binding]; other site 283942000202 N-terminal domain interface [polypeptide binding]; other site 283942000203 putative substrate binding pocket (H-site) [chemical binding]; other site 283942000204 Predicted transcriptional regulator [Transcription]; Region: COG2378 283942000205 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 283942000206 dimerization interface [polypeptide binding]; other site 283942000207 putative Zn2+ binding site [ion binding]; other site 283942000208 putative DNA binding site [nucleotide binding]; other site 283942000209 WYL domain; Region: WYL; pfam13280 283942000210 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 283942000211 catalytic motif [active] 283942000212 Zn binding site [ion binding]; other site 283942000213 Integrase core domain; Region: rve; pfam00665 283942000214 Integrase core domain; Region: rve_2; pfam13333 283942000215 HTH-like domain; Region: HTH_21; pfam13276 283942000216 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 283942000217 EamA-like transporter family; Region: EamA; pfam00892 283942000218 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 283942000219 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 283942000220 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 283942000221 dimerization interface [polypeptide binding]; other site 283942000222 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 283942000223 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 283942000224 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 283942000225 DNA binding residues [nucleotide binding] 283942000226 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 283942000227 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 283942000228 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 283942000229 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 283942000230 non-specific DNA binding site [nucleotide binding]; other site 283942000231 salt bridge; other site 283942000232 sequence-specific DNA binding site [nucleotide binding]; other site 283942000233 uncharacterized conserved protein, fragment 283942000234 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 283942000235 non-specific DNA binding site [nucleotide binding]; other site 283942000236 salt bridge; other site 283942000237 sequence-specific DNA binding site [nucleotide binding]; other site 283942000238 HipA N-terminal domain; Region: Couple_hipA; pfam13657 283942000239 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 283942000240 HipA-like N-terminal domain; Region: HipA_N; pfam07805 283942000241 HipA-like C-terminal domain; Region: HipA_C; pfam07804 283942000242 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 283942000243 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 283942000244 DNA binding residues [nucleotide binding] 283942000245 dimerization interface [polypeptide binding]; other site 283942000246 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 283942000247 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 283942000248 Protein export membrane protein; Region: SecD_SecF; cl14618 283942000249 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 283942000250 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 283942000251 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 283942000252 thioredoxin 2; Provisional; Region: PRK10996 283942000253 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 283942000254 catalytic residues [active] 283942000255 Predicted membrane protein [Function unknown]; Region: COG1238 283942000256 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 283942000257 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 283942000258 N-terminal plug; other site 283942000259 ligand-binding site [chemical binding]; other site 283942000260 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 283942000261 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 283942000262 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 283942000263 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 283942000264 DNA binding site [nucleotide binding] 283942000265 active site 283942000266 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 283942000267 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 283942000268 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 283942000269 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 283942000270 NAD(P) binding site [chemical binding]; other site 283942000271 catalytic residues [active] 283942000272 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 283942000273 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 283942000274 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 283942000275 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 283942000276 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 283942000277 dimerization interface [polypeptide binding]; other site 283942000278 DPS ferroxidase diiron center [ion binding]; other site 283942000279 ion pore; other site 283942000280 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 283942000281 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 283942000282 active site 283942000283 FMN binding site [chemical binding]; other site 283942000284 substrate binding site [chemical binding]; other site 283942000285 homotetramer interface [polypeptide binding]; other site 283942000286 catalytic residue [active] 283942000287 TraB family; Region: TraB; pfam01963 283942000288 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 283942000289 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 283942000290 MarR family; Region: MarR; pfam01047 283942000291 MarR family; Region: MarR_2; cl17246 283942000292 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 283942000293 substrate binding site [chemical binding]; other site 283942000294 active site 283942000295 active site 283942000296 Alpha-L-arabinofuranosidase B (ABFB); Region: AbfB; pfam05270 283942000297 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 283942000298 classical (c) SDRs; Region: SDR_c; cd05233 283942000299 NAD(P) binding site [chemical binding]; other site 283942000300 active site 283942000301 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 283942000302 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 283942000303 putative active site [active] 283942000304 putative metal binding site [ion binding]; other site 283942000305 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 283942000306 Sulfatase; Region: Sulfatase; pfam00884 283942000307 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 283942000308 Thermostable hemolysin; Region: T_hemolysin; pfam12261 283942000309 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 283942000310 AMP-binding enzyme; Region: AMP-binding; pfam00501 283942000311 acyl-activating enzyme (AAE) consensus motif; other site 283942000312 AMP binding site [chemical binding]; other site 283942000313 active site 283942000314 CoA binding site [chemical binding]; other site 283942000315 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 283942000316 heme binding pocket [chemical binding]; other site 283942000317 heme ligand [chemical binding]; other site 283942000318 short chain dehydrogenase; Provisional; Region: PRK09072 283942000319 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 283942000320 NAD(P) binding site [chemical binding]; other site 283942000321 active site 283942000322 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 283942000323 TPR motif; other site 283942000324 binding surface 283942000325 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 283942000326 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942000327 active site 283942000328 phosphorylation site [posttranslational modification] 283942000329 intermolecular recognition site; other site 283942000330 dimerization interface [polypeptide binding]; other site 283942000331 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 283942000332 DNA binding site [nucleotide binding] 283942000333 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 283942000334 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 283942000335 dimer interface [polypeptide binding]; other site 283942000336 phosphorylation site [posttranslational modification] 283942000337 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942000338 ATP binding site [chemical binding]; other site 283942000339 Mg2+ binding site [ion binding]; other site 283942000340 G-X-G motif; other site 283942000341 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 283942000342 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 283942000343 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 283942000344 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 283942000345 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 283942000346 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942000347 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942000348 metal binding site [ion binding]; metal-binding site 283942000349 active site 283942000350 I-site; other site 283942000351 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 283942000352 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 283942000353 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 283942000354 Phytase; Region: Phytase; cl17685 283942000355 Phytase; Region: Phytase; cl17685 283942000356 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 283942000357 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. 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, reaction...; Region: NAPRTase_A; cd01570 283942000358 active site 283942000359 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 283942000360 Isochorismatase family; Region: Isochorismatase; pfam00857 283942000361 catalytic triad [active] 283942000362 metal binding site [ion binding]; metal-binding site 283942000363 conserved cis-peptide bond; other site 283942000364 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 283942000365 putative ADP-ribose binding site [chemical binding]; other site 283942000366 putative active site [active] 283942000367 Methyltransferase domain; Region: Methyltransf_23; pfam13489 283942000368 Methyltransferase domain; Region: Methyltransf_11; pfam08241 283942000369 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 283942000370 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 283942000371 dimer interface [polypeptide binding]; other site 283942000372 active site 283942000373 heme binding site [chemical binding]; other site 283942000374 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 283942000375 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 283942000376 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 283942000377 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 283942000378 classical (c) SDRs; Region: SDR_c; cd05233 283942000379 NAD(P) binding site [chemical binding]; other site 283942000380 active site 283942000381 Cytochrome c; Region: Cytochrom_C; pfam00034 283942000382 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 283942000383 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 283942000384 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 283942000385 N-terminal plug; other site 283942000386 ligand-binding site [chemical binding]; other site 283942000387 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 283942000388 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 283942000389 intersubunit interface [polypeptide binding]; other site 283942000390 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 283942000391 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 283942000392 ABC-ATPase subunit interface; other site 283942000393 dimer interface [polypeptide binding]; other site 283942000394 putative PBP binding regions; other site 283942000395 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 283942000396 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 283942000397 Walker A/P-loop; other site 283942000398 ATP binding site [chemical binding]; other site 283942000399 Q-loop/lid; other site 283942000400 ABC transporter signature motif; other site 283942000401 Walker B; other site 283942000402 D-loop; other site 283942000403 H-loop/switch region; other site 283942000404 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 283942000405 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 283942000406 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 283942000407 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 283942000408 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 283942000409 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 283942000410 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 283942000411 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 283942000412 active site 283942000413 metal binding site [ion binding]; metal-binding site 283942000414 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 283942000415 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 283942000416 putative ADP-binding pocket [chemical binding]; other site 283942000417 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 283942000418 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 283942000419 DNA photolyase; Region: DNA_photolyase; pfam00875 283942000420 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 283942000421 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 283942000422 NAD binding site [chemical binding]; other site 283942000423 homodimer interface [polypeptide binding]; other site 283942000424 active site 283942000425 substrate binding site [chemical binding]; other site 283942000426 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 283942000427 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 283942000428 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 283942000429 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 283942000430 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 283942000431 putative acyl-acceptor binding pocket; other site 283942000432 Phosphopantetheine attachment site; Region: PP-binding; cl09936 283942000433 acyl carrier protein; Provisional; Region: PRK05350 283942000434 Predicted membrane protein [Function unknown]; Region: COG4648 283942000435 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 283942000436 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 283942000437 AMP binding site [chemical binding]; other site 283942000438 active site 283942000439 acyl-activating enzyme (AAE) consensus motif; other site 283942000440 CoA binding site [chemical binding]; other site 283942000441 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 283942000442 active site 2 [active] 283942000443 dimer interface [polypeptide binding]; other site 283942000444 active site 1 [active] 283942000445 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 283942000446 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 283942000447 Ligand binding site; other site 283942000448 Putative Catalytic site; other site 283942000449 DXD motif; other site 283942000450 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 283942000451 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 283942000452 putative acyl-acceptor binding pocket; other site 283942000453 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 283942000454 active sites [active] 283942000455 tetramer interface [polypeptide binding]; other site 283942000456 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 283942000457 active site 283942000458 Predicted exporter [General function prediction only]; Region: COG4258 283942000459 Predicted exporter [General function prediction only]; Region: COG4258 283942000460 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 283942000461 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 283942000462 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 283942000463 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 283942000464 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 283942000465 dimer interface [polypeptide binding]; other site 283942000466 active site 283942000467 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 283942000468 putative active site 1 [active] 283942000469 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 283942000470 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 283942000471 NAD(P) binding site [chemical binding]; other site 283942000472 homotetramer interface [polypeptide binding]; other site 283942000473 homodimer interface [polypeptide binding]; other site 283942000474 active site 283942000475 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 283942000476 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 283942000477 dimer interface [polypeptide binding]; other site 283942000478 active site 283942000479 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 283942000480 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 283942000481 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 283942000482 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_4; cd03407 283942000483 EAL domain; Region: EAL; pfam00563 283942000484 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 283942000485 probable FeS assembly SUF system protein SufT; Region: FeS_long_SufT; TIGR03406 283942000486 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 283942000487 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 283942000488 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 283942000489 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 283942000490 catalytic residue [active] 283942000491 FeS assembly protein SufD; Region: sufD; TIGR01981 283942000492 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 283942000493 FeS assembly ATPase SufC; Region: sufC; TIGR01978 283942000494 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 283942000495 Walker A/P-loop; other site 283942000496 ATP binding site [chemical binding]; other site 283942000497 Q-loop/lid; other site 283942000498 ABC transporter signature motif; other site 283942000499 Walker B; other site 283942000500 D-loop; other site 283942000501 H-loop/switch region; other site 283942000502 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 283942000503 putative ABC transporter; Region: ycf24; CHL00085 283942000504 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 283942000505 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 283942000506 DNA binding residues [nucleotide binding] 283942000507 dimerization interface [polypeptide binding]; other site 283942000508 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 283942000509 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 283942000510 Curli assembly protein CsgE; Region: CsgE; pfam10627 283942000511 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 283942000512 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 283942000513 Curlin associated repeat; Region: Curlin_rpt; pfam07012 283942000514 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 283942000515 catalytic triad [active] 283942000516 putative active site [active] 283942000517 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 283942000518 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 283942000519 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 283942000520 active site 283942000521 catalytic triad [active] 283942000522 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 283942000523 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 283942000524 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 283942000525 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 283942000526 hypothetical protein; Provisional; Region: PRK12378 283942000527 OmpW family; Region: OmpW; cl17427 283942000528 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 283942000529 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942000530 active site 283942000531 phosphorylation site [posttranslational modification] 283942000532 intermolecular recognition site; other site 283942000533 dimerization interface [polypeptide binding]; other site 283942000534 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 283942000535 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 283942000536 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942000537 ATP binding site [chemical binding]; other site 283942000538 Mg2+ binding site [ion binding]; other site 283942000539 G-X-G motif; other site 283942000540 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 283942000541 N-terminal plug; other site 283942000542 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 283942000543 ligand-binding site [chemical binding]; other site 283942000544 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 283942000545 dimerization interface [polypeptide binding]; other site 283942000546 putative DNA binding site [nucleotide binding]; other site 283942000547 putative Zn2+ binding site [ion binding]; other site 283942000548 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 283942000549 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 283942000550 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 283942000551 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 283942000552 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 283942000553 dimer interface [polypeptide binding]; other site 283942000554 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 283942000555 putative CheW interface [polypeptide binding]; other site 283942000556 Hemerythrin; Region: Hemerythrin; cd12107 283942000557 Fe binding site [ion binding]; other site 283942000558 Acyl transferase domain; Region: Acyl_transf_1; cl08282 283942000559 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 283942000560 tetramer interface [polypeptide binding]; other site 283942000561 TPP-binding site [chemical binding]; other site 283942000562 heterodimer interface [polypeptide binding]; other site 283942000563 phosphorylation loop region [posttranslational modification] 283942000564 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 283942000565 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 283942000566 alpha subunit interface [polypeptide binding]; other site 283942000567 TPP binding site [chemical binding]; other site 283942000568 heterodimer interface [polypeptide binding]; other site 283942000569 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 283942000570 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 283942000571 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 283942000572 FAD binding site [chemical binding]; other site 283942000573 substrate binding pocket [chemical binding]; other site 283942000574 catalytic base [active] 283942000575 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 283942000576 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 283942000577 ligand binding site [chemical binding]; other site 283942000578 flexible hinge region; other site 283942000579 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 283942000580 putative switch regulator; other site 283942000581 non-specific DNA interactions [nucleotide binding]; other site 283942000582 DNA binding site [nucleotide binding] 283942000583 sequence specific DNA binding site [nucleotide binding]; other site 283942000584 putative cAMP binding site [chemical binding]; other site 283942000585 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 283942000586 putative protease; Provisional; Region: PRK15452 283942000587 Peptidase family U32; Region: Peptidase_U32; pfam01136 283942000588 transcriptional regulator NarL; Provisional; Region: PRK10651 283942000589 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942000590 active site 283942000591 phosphorylation site [posttranslational modification] 283942000592 intermolecular recognition site; other site 283942000593 dimerization interface [polypeptide binding]; other site 283942000594 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 283942000595 DNA binding residues [nucleotide binding] 283942000596 dimerization interface [polypeptide binding]; other site 283942000597 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 283942000598 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 283942000599 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 283942000600 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 283942000601 dimerization interface [polypeptide binding]; other site 283942000602 Histidine kinase; Region: HisKA_3; pfam07730 283942000603 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942000604 ATP binding site [chemical binding]; other site 283942000605 Mg2+ binding site [ion binding]; other site 283942000606 G-X-G motif; other site 283942000607 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 283942000608 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: RNR_activ_nrdG3; TIGR02826 283942000609 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08271 283942000610 Class III ribonucleotide reductase; Region: RNR_III; cd01675 283942000611 effector binding site; other site 283942000612 active site 283942000613 Zn binding site [ion binding]; other site 283942000614 glycine loop; other site 283942000615 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 283942000616 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 283942000617 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 283942000618 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 283942000619 FeS/SAM binding site; other site 283942000620 HemN C-terminal domain; Region: HemN_C; pfam06969 283942000621 SCP-2 sterol transfer family; Region: SCP2; cl01225 283942000622 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 283942000623 Peptidase family U32; Region: Peptidase_U32; pfam01136 283942000624 putative protease; Provisional; Region: PRK15447 283942000625 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 283942000626 NnrS protein; Region: NnrS; pfam05940 283942000627 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 283942000628 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 283942000629 GAF domain; Region: GAF; pfam01590 283942000630 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 283942000631 Walker A motif; other site 283942000632 ATP binding site [chemical binding]; other site 283942000633 Walker B motif; other site 283942000634 arginine finger; other site 283942000635 Hemerythrin-like domain; Region: Hr-like; cd12108 283942000636 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 283942000637 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 283942000638 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 283942000639 N-acetyl-D-glucosamine binding site [chemical binding]; other site 283942000640 catalytic residue [active] 283942000641 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 283942000642 putative active site [active] 283942000643 Zn binding site [ion binding]; other site 283942000644 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 283942000645 TrkA-N domain; Region: TrkA_N; pfam02254 283942000646 TrkA-C domain; Region: TrkA_C; pfam02080 283942000647 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 283942000648 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 283942000649 Cache domain; Region: Cache_1; pfam02743 283942000650 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 283942000651 dimerization interface [polypeptide binding]; other site 283942000652 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 283942000653 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 283942000654 dimer interface [polypeptide binding]; other site 283942000655 putative CheW interface [polypeptide binding]; other site 283942000656 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 283942000657 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 283942000658 DNA polymerase IV; Validated; Region: PRK02406 283942000659 DNA binding site [nucleotide binding] 283942000660 active site 283942000661 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 283942000662 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 283942000663 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 283942000664 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 283942000665 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 283942000666 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942000667 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942000668 metal binding site [ion binding]; metal-binding site 283942000669 active site 283942000670 I-site; other site 283942000671 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 283942000672 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 283942000673 Part of AAA domain; Region: AAA_19; pfam13245 283942000674 Family description; Region: UvrD_C_2; pfam13538 283942000675 Membrane fusogenic activity; Region: BMFP; pfam04380 283942000676 ferredoxin-NADP reductase; Provisional; Region: PRK10926 283942000677 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 283942000678 FAD binding pocket [chemical binding]; other site 283942000679 FAD binding motif [chemical binding]; other site 283942000680 phosphate binding motif [ion binding]; other site 283942000681 beta-alpha-beta structure motif; other site 283942000682 NAD binding pocket [chemical binding]; other site 283942000683 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 283942000684 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 283942000685 catalytic residues [active] 283942000686 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 283942000687 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 283942000688 catalytic residues [active] 283942000689 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 283942000690 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 283942000691 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 283942000692 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 283942000693 DsbD alpha interface [polypeptide binding]; other site 283942000694 catalytic residues [active] 283942000695 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 283942000696 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 283942000697 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 283942000698 Walker A motif; other site 283942000699 ATP binding site [chemical binding]; other site 283942000700 Walker B motif; other site 283942000701 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 283942000702 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 283942000703 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 283942000704 tetramer interface [polypeptide binding]; other site 283942000705 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283942000706 catalytic residue [active] 283942000707 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 283942000708 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 283942000709 dimer interface [polypeptide binding]; other site 283942000710 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283942000711 catalytic residue [active] 283942000712 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 283942000713 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 283942000714 homodimer interface [polypeptide binding]; other site 283942000715 substrate-cofactor binding pocket; other site 283942000716 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283942000717 catalytic residue [active] 283942000718 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 283942000719 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 283942000720 putative metal binding site [ion binding]; other site 283942000721 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 283942000722 tetramer interface [polypeptide binding]; other site 283942000723 serine racemase; Region: PLN02970 283942000724 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283942000725 catalytic residue [active] 283942000726 Protein of unknown function (DUF416); Region: DUF416; pfam04222 283942000727 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 283942000728 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 283942000729 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 283942000730 S-adenosylmethionine binding site [chemical binding]; other site 283942000731 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 283942000732 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 283942000733 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 283942000734 P loop; other site 283942000735 GTP binding site [chemical binding]; other site 283942000736 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 283942000737 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 283942000738 Walker A/P-loop; other site 283942000739 ATP binding site [chemical binding]; other site 283942000740 Q-loop/lid; other site 283942000741 ABC transporter signature motif; other site 283942000742 Walker B; other site 283942000743 D-loop; other site 283942000744 H-loop/switch region; other site 283942000745 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 283942000746 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 283942000747 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 283942000748 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 283942000749 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 283942000750 DNA binding residues [nucleotide binding] 283942000751 Flagellin N-methylase; Region: FliB; cl00497 283942000752 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 283942000753 NodB motif; other site 283942000754 putative active site [active] 283942000755 putative catalytic site [active] 283942000756 Zn binding site [ion binding]; other site 283942000757 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 283942000758 Peptidase family M23; Region: Peptidase_M23; pfam01551 283942000759 phosphoglyceromutase; Provisional; Region: PRK05434 283942000760 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 283942000761 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 283942000762 active site residue [active] 283942000763 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 283942000764 SecA binding site; other site 283942000765 Preprotein binding site; other site 283942000766 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 283942000767 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 283942000768 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 283942000769 division inhibitor protein; Provisional; Region: slmA; PRK09480 283942000770 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 283942000771 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 283942000772 trimer interface [polypeptide binding]; other site 283942000773 active site 283942000774 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 283942000775 Flavoprotein; Region: Flavoprotein; pfam02441 283942000776 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 283942000777 hypothetical protein; Reviewed; Region: PRK00024 283942000778 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 283942000779 MPN+ (JAMM) motif; other site 283942000780 Zinc-binding site [ion binding]; other site 283942000781 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 283942000782 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 283942000783 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 283942000784 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 283942000785 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 283942000786 DNA binding site [nucleotide binding] 283942000787 catalytic residue [active] 283942000788 H2TH interface [polypeptide binding]; other site 283942000789 putative catalytic residues [active] 283942000790 turnover-facilitating residue; other site 283942000791 intercalation triad [nucleotide binding]; other site 283942000792 8OG recognition residue [nucleotide binding]; other site 283942000793 putative reading head residues; other site 283942000794 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 283942000795 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 283942000796 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 283942000797 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 283942000798 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 283942000799 active site 283942000800 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 283942000801 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 283942000802 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 283942000803 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 283942000804 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 283942000805 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 283942000806 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 283942000807 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 283942000808 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 283942000809 Putative catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases which consist of a 5-stranded beta/alpha barrel; Region: CE4_DAC_u4_5s; cd10973 283942000810 putative active site [active] 283942000811 putative metal binding site [ion binding]; other site 283942000812 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 283942000813 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 283942000814 Cu(I) binding site [ion binding]; other site 283942000815 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 283942000816 UbiA prenyltransferase family; Region: UbiA; pfam01040 283942000817 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 283942000818 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 283942000819 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 283942000820 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 283942000821 Subunit III/VIIa interface [polypeptide binding]; other site 283942000822 Phospholipid binding site [chemical binding]; other site 283942000823 Subunit I/III interface [polypeptide binding]; other site 283942000824 Subunit III/VIb interface [polypeptide binding]; other site 283942000825 Subunit III/VIa interface; other site 283942000826 Subunit III/Vb interface [polypeptide binding]; other site 283942000827 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 283942000828 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 283942000829 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 283942000830 Subunit I/III interface [polypeptide binding]; other site 283942000831 D-pathway; other site 283942000832 Subunit I/VIIc interface [polypeptide binding]; other site 283942000833 Subunit I/IV interface [polypeptide binding]; other site 283942000834 Subunit I/II interface [polypeptide binding]; other site 283942000835 Low-spin heme (heme a) binding site [chemical binding]; other site 283942000836 Subunit I/VIIa interface [polypeptide binding]; other site 283942000837 Subunit I/VIa interface [polypeptide binding]; other site 283942000838 Dimer interface; other site 283942000839 Putative water exit pathway; other site 283942000840 Binuclear center (heme a3/CuB) [ion binding]; other site 283942000841 K-pathway; other site 283942000842 Subunit I/Vb interface [polypeptide binding]; other site 283942000843 Putative proton exit pathway; other site 283942000844 Subunit I/VIb interface; other site 283942000845 Subunit I/VIc interface [polypeptide binding]; other site 283942000846 Electron transfer pathway; other site 283942000847 Subunit I/VIIIb interface [polypeptide binding]; other site 283942000848 Subunit I/VIIb interface [polypeptide binding]; other site 283942000849 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 283942000850 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 283942000851 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 283942000852 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 283942000853 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 283942000854 LexA repressor; Validated; Region: PRK00215 283942000855 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 283942000856 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 283942000857 Catalytic site [active] 283942000858 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 283942000859 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 283942000860 putative acyl-acceptor binding pocket; other site 283942000861 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 283942000862 UbiA prenyltransferase family; Region: UbiA; pfam01040 283942000863 Chorismate lyase; Region: Chor_lyase; cl01230 283942000864 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 283942000865 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 283942000866 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 283942000867 Rhomboid family; Region: Rhomboid; pfam01694 283942000868 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 283942000869 active site residue [active] 283942000870 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 283942000871 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 283942000872 NAD(P) binding site [chemical binding]; other site 283942000873 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 283942000874 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 283942000875 substrate-cofactor binding pocket; other site 283942000876 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283942000877 catalytic residue [active] 283942000878 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 283942000879 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 283942000880 active site 283942000881 (T/H)XGH motif; other site 283942000882 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 283942000883 Na2 binding site [ion binding]; other site 283942000884 putative substrate binding site 1 [chemical binding]; other site 283942000885 Na binding site 1 [ion binding]; other site 283942000886 putative substrate binding site 2 [chemical binding]; other site 283942000887 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 283942000888 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 283942000889 active site 283942000890 substrate-binding site [chemical binding]; other site 283942000891 metal-binding site [ion binding] 283942000892 ATP binding site [chemical binding]; other site 283942000893 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 283942000894 ATP-binding cassette domain of an uncharacterized transporter; Region: ABC_putative_ATPase; cd03269 283942000895 Walker A/P-loop; other site 283942000896 ATP binding site [chemical binding]; other site 283942000897 Q-loop/lid; other site 283942000898 ABC transporter signature motif; other site 283942000899 Walker B; other site 283942000900 D-loop; other site 283942000901 H-loop/switch region; other site 283942000902 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 283942000903 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 283942000904 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 283942000905 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 283942000906 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 283942000907 Fatty acid desaturase; Region: FA_desaturase; pfam00487 283942000908 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 283942000909 Di-iron ligands [ion binding]; other site 283942000910 SprA-related family; Region: SprA-related; pfam12118 283942000911 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 283942000912 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 283942000913 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 283942000914 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 283942000915 RNA binding site [nucleotide binding]; other site 283942000916 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 283942000917 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 283942000918 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 283942000919 Tryptophan-rich protein (DUF2389); Region: DUF2389; pfam09493 283942000920 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 283942000921 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 283942000922 YaeQ protein; Region: YaeQ; pfam07152 283942000923 Protein of unknown function (DUF4241); Region: DUF4241; pfam14025 283942000924 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 283942000925 putative lipid kinase; Reviewed; Region: PRK13057 283942000926 Histidine kinase; Region: His_kinase; pfam06580 283942000927 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942000928 ATP binding site [chemical binding]; other site 283942000929 Mg2+ binding site [ion binding]; other site 283942000930 G-X-G motif; other site 283942000931 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 283942000932 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942000933 active site 283942000934 phosphorylation site [posttranslational modification] 283942000935 intermolecular recognition site; other site 283942000936 dimerization interface [polypeptide binding]; other site 283942000937 LytTr DNA-binding domain; Region: LytTR; smart00850 283942000938 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 283942000939 Amidohydrolase; Region: Amidohydro_4; pfam13147 283942000940 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 283942000941 active site 283942000942 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942000943 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942000944 metal binding site [ion binding]; metal-binding site 283942000945 active site 283942000946 I-site; other site 283942000947 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 283942000948 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 283942000949 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 283942000950 Predicted transcriptional regulator [Transcription]; Region: COG2944 283942000951 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 283942000952 non-specific DNA binding site [nucleotide binding]; other site 283942000953 salt bridge; other site 283942000954 sequence-specific DNA binding site [nucleotide binding]; other site 283942000955 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 283942000956 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 283942000957 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 283942000958 active site 283942000959 metal binding site [ion binding]; metal-binding site 283942000960 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_19; cd04678 283942000961 nudix motif; other site 283942000962 Transcriptional regulators [Transcription]; Region: FadR; COG2186 283942000963 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 283942000964 DNA-binding site [nucleotide binding]; DNA binding site 283942000965 FCD domain; Region: FCD; pfam07729 283942000966 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 283942000967 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 283942000968 putative deacylase active site [active] 283942000969 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 283942000970 Amidohydrolase; Region: Amidohydro_4; pfam13147 283942000971 active site 283942000972 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 283942000973 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 283942000974 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 283942000975 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 283942000976 Walker A/P-loop; other site 283942000977 ATP binding site [chemical binding]; other site 283942000978 Q-loop/lid; other site 283942000979 ABC transporter signature motif; other site 283942000980 Walker B; other site 283942000981 D-loop; other site 283942000982 H-loop/switch region; other site 283942000983 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 283942000984 Histidine kinase; Region: HisKA_3; pfam07730 283942000985 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 283942000986 ATP binding site [chemical binding]; other site 283942000987 Mg2+ binding site [ion binding]; other site 283942000988 G-X-G motif; other site 283942000989 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 283942000990 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942000991 active site 283942000992 phosphorylation site [posttranslational modification] 283942000993 intermolecular recognition site; other site 283942000994 dimerization interface [polypeptide binding]; other site 283942000995 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 283942000996 DNA binding residues [nucleotide binding] 283942000997 dimerization interface [polypeptide binding]; other site 283942000998 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 283942000999 Prostaglandin dehydrogenases; Region: PGDH; cd05288 283942001000 NAD(P) binding site [chemical binding]; other site 283942001001 substrate binding site [chemical binding]; other site 283942001002 dimer interface [polypeptide binding]; other site 283942001003 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 283942001004 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 283942001005 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 283942001006 substrate binding pocket [chemical binding]; other site 283942001007 membrane-bound complex binding site; other site 283942001008 hinge residues; other site 283942001009 PAS fold; Region: PAS_4; pfam08448 283942001010 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 283942001011 putative active site [active] 283942001012 heme pocket [chemical binding]; other site 283942001013 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942001014 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942001015 metal binding site [ion binding]; metal-binding site 283942001016 active site 283942001017 I-site; other site 283942001018 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 283942001019 Ion channel; Region: Ion_trans_2; pfam07885 283942001020 osmolarity response regulator; Provisional; Region: ompR; PRK09468 283942001021 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942001022 active site 283942001023 phosphorylation site [posttranslational modification] 283942001024 intermolecular recognition site; other site 283942001025 dimerization interface [polypeptide binding]; other site 283942001026 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 283942001027 DNA binding site [nucleotide binding] 283942001028 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 283942001029 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 283942001030 dimerization interface [polypeptide binding]; other site 283942001031 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 283942001032 dimer interface [polypeptide binding]; other site 283942001033 phosphorylation site [posttranslational modification] 283942001034 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942001035 ATP binding site [chemical binding]; other site 283942001036 Mg2+ binding site [ion binding]; other site 283942001037 G-X-G motif; other site 283942001038 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 283942001039 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 283942001040 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 283942001041 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 283942001042 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 283942001043 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 283942001044 dimer interface [polypeptide binding]; other site 283942001045 ADP-ribose binding site [chemical binding]; other site 283942001046 active site 283942001047 nudix motif; other site 283942001048 metal binding site [ion binding]; metal-binding site 283942001049 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 283942001050 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...; Region: CysQ; cd01638 283942001051 active site 283942001052 hypothetical protein; Provisional; Region: PRK04966 283942001053 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 283942001054 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 283942001055 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 283942001056 Walker A/P-loop; other site 283942001057 ATP binding site [chemical binding]; other site 283942001058 Q-loop/lid; other site 283942001059 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 283942001060 ABC transporter signature motif; other site 283942001061 Walker B; other site 283942001062 D-loop; other site 283942001063 ABC transporter; Region: ABC_tran_2; pfam12848 283942001064 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 283942001065 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 283942001066 Uncharacterized conserved protein [Function unknown]; Region: COG0062 283942001067 putative carbohydrate kinase; Provisional; Region: PRK10565 283942001068 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 283942001069 putative substrate binding site [chemical binding]; other site 283942001070 putative ATP binding site [chemical binding]; other site 283942001071 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 283942001072 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 283942001073 AMIN domain; Region: AMIN; pfam11741 283942001074 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 283942001075 active site 283942001076 metal binding site [ion binding]; metal-binding site 283942001077 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 283942001078 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 283942001079 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942001080 Mg2+ binding site [ion binding]; other site 283942001081 G-X-G motif; other site 283942001082 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 283942001083 ATP binding site [chemical binding]; other site 283942001084 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 283942001085 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 283942001086 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 283942001087 bacterial Hfq-like; Region: Hfq; cd01716 283942001088 hexamer interface [polypeptide binding]; other site 283942001089 Sm1 motif; other site 283942001090 RNA binding site [nucleotide binding]; other site 283942001091 Sm2 motif; other site 283942001092 GTPase HflX; Provisional; Region: PRK11058 283942001093 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 283942001094 HflX GTPase family; Region: HflX; cd01878 283942001095 G1 box; other site 283942001096 GTP/Mg2+ binding site [chemical binding]; other site 283942001097 Switch I region; other site 283942001098 G2 box; other site 283942001099 G3 box; other site 283942001100 Switch II region; other site 283942001101 G4 box; other site 283942001102 G5 box; other site 283942001103 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 283942001104 HflK protein; Region: hflK; TIGR01933 283942001105 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 283942001106 FtsH protease regulator HflC; Provisional; Region: PRK11029 283942001107 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 283942001108 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 283942001109 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 283942001110 GDP-binding site [chemical binding]; other site 283942001111 ACT binding site; other site 283942001112 IMP binding site; other site 283942001113 elongation factor Tu; Reviewed; Region: PRK00049 283942001114 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 283942001115 G1 box; other site 283942001116 GEF interaction site [polypeptide binding]; other site 283942001117 GTP/Mg2+ binding site [chemical binding]; other site 283942001118 Switch I region; other site 283942001119 G2 box; other site 283942001120 G3 box; other site 283942001121 Switch II region; other site 283942001122 G4 box; other site 283942001123 G5 box; other site 283942001124 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 283942001125 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 283942001126 Antibiotic Binding Site [chemical binding]; other site 283942001127 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 283942001128 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 283942001129 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 283942001130 putative homodimer interface [polypeptide binding]; other site 283942001131 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 283942001132 heterodimer interface [polypeptide binding]; other site 283942001133 homodimer interface [polypeptide binding]; other site 283942001134 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 283942001135 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 283942001136 23S rRNA interface [nucleotide binding]; other site 283942001137 L7/L12 interface [polypeptide binding]; other site 283942001138 putative thiostrepton binding site; other site 283942001139 L25 interface [polypeptide binding]; other site 283942001140 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 283942001141 mRNA/rRNA interface [nucleotide binding]; other site 283942001142 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 283942001143 23S rRNA interface [nucleotide binding]; other site 283942001144 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 283942001145 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 283942001146 core dimer interface [polypeptide binding]; other site 283942001147 peripheral dimer interface [polypeptide binding]; other site 283942001148 L10 interface [polypeptide binding]; other site 283942001149 L11 interface [polypeptide binding]; other site 283942001150 putative EF-Tu interaction site [polypeptide binding]; other site 283942001151 putative EF-G interaction site [polypeptide binding]; other site 283942001152 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 283942001153 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 283942001154 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 283942001155 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 283942001156 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 283942001157 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 283942001158 RPB3 interaction site [polypeptide binding]; other site 283942001159 RPB1 interaction site [polypeptide binding]; other site 283942001160 RPB11 interaction site [polypeptide binding]; other site 283942001161 RPB10 interaction site [polypeptide binding]; other site 283942001162 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 283942001163 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 283942001164 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 283942001165 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 283942001166 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 283942001167 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 283942001168 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 283942001169 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 283942001170 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 283942001171 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 283942001172 DNA binding site [nucleotide binding] 283942001173 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 283942001174 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 283942001175 S17 interaction site [polypeptide binding]; other site 283942001176 S8 interaction site; other site 283942001177 16S rRNA interaction site [nucleotide binding]; other site 283942001178 streptomycin interaction site [chemical binding]; other site 283942001179 23S rRNA interaction site [nucleotide binding]; other site 283942001180 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 283942001181 30S ribosomal protein S7; Validated; Region: PRK05302 283942001182 elongation factor G; Reviewed; Region: PRK00007 283942001183 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 283942001184 G1 box; other site 283942001185 putative GEF interaction site [polypeptide binding]; other site 283942001186 GTP/Mg2+ binding site [chemical binding]; other site 283942001187 Switch I region; other site 283942001188 G2 box; other site 283942001189 G3 box; other site 283942001190 Switch II region; other site 283942001191 G4 box; other site 283942001192 G5 box; other site 283942001193 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 283942001194 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 283942001195 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 283942001196 elongation factor Tu; Reviewed; Region: PRK00049 283942001197 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 283942001198 G1 box; other site 283942001199 GEF interaction site [polypeptide binding]; other site 283942001200 GTP/Mg2+ binding site [chemical binding]; other site 283942001201 Switch I region; other site 283942001202 G2 box; other site 283942001203 G3 box; other site 283942001204 Switch II region; other site 283942001205 G4 box; other site 283942001206 G5 box; other site 283942001207 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 283942001208 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 283942001209 Antibiotic Binding Site [chemical binding]; other site 283942001210 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 283942001211 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 283942001212 glutaminase A; Region: Gln_ase; TIGR03814 283942001213 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 283942001214 active site 283942001215 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 283942001216 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 283942001217 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 283942001218 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 283942001219 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 283942001220 Major Facilitator Superfamily; Region: MFS_1; pfam07690 283942001221 putative substrate translocation pore; other site 283942001222 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 283942001223 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 283942001224 dimer interface [polypeptide binding]; other site 283942001225 ssDNA binding site [nucleotide binding]; other site 283942001226 tetramer (dimer of dimers) interface [polypeptide binding]; other site 283942001227 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 283942001228 MarR family; Region: MarR; pfam01047 283942001229 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 283942001230 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 283942001231 HlyD family secretion protein; Region: HlyD_3; pfam13437 283942001232 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 283942001233 adenosine deaminase; Provisional; Region: PRK09358 283942001234 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 283942001235 active site 283942001236 thymidine kinase; Provisional; Region: PRK04296 283942001237 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 283942001238 ATP binding site [chemical binding]; other site 283942001239 Walker A motif; other site 283942001240 Walker B motif; other site 283942001241 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 283942001242 active site 283942001243 substrate binding pocket [chemical binding]; other site 283942001244 dimer interface [polypeptide binding]; other site 283942001245 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 283942001246 Secretin and TonB N terminus short domain; Region: STN; smart00965 283942001247 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 283942001248 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 283942001249 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 283942001250 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 283942001251 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 283942001252 Walker A motif; other site 283942001253 ATP binding site [chemical binding]; other site 283942001254 Walker B motif; other site 283942001255 arginine finger; other site 283942001256 TPR repeat; Region: TPR_11; pfam13414 283942001257 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 283942001258 binding surface 283942001259 TPR motif; other site 283942001260 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 283942001261 TPR motif; other site 283942001262 binding surface 283942001263 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 283942001264 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 283942001265 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 283942001266 Walker A motif; other site 283942001267 ATP binding site [chemical binding]; other site 283942001268 Walker B motif; other site 283942001269 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 283942001270 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 283942001271 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 283942001272 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 283942001273 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 283942001274 PEGA domain; Region: PEGA; pfam08308 283942001275 Uncharacterized conserved protein [Function unknown]; Region: COG1262 283942001276 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 283942001277 rod shape-determining protein MreB; Provisional; Region: PRK13927 283942001278 MreB and similar proteins; Region: MreB_like; cd10225 283942001279 nucleotide binding site [chemical binding]; other site 283942001280 Mg binding site [ion binding]; other site 283942001281 putative protofilament interaction site [polypeptide binding]; other site 283942001282 RodZ interaction site [polypeptide binding]; other site 283942001283 rod shape-determining protein MreC; Provisional; Region: PRK13922 283942001284 rod shape-determining protein MreC; Region: MreC; pfam04085 283942001285 rod shape-determining protein MreD; Region: MreD; cl01087 283942001286 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 283942001287 active site 283942001288 dimer interface [polypeptide binding]; other site 283942001289 ribonuclease G; Provisional; Region: PRK11712 283942001290 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 283942001291 homodimer interface [polypeptide binding]; other site 283942001292 oligonucleotide binding site [chemical binding]; other site 283942001293 TIGR02099 family protein; Region: TIGR02099 283942001294 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 283942001295 nitrilase; Region: PLN02798 283942001296 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 283942001297 putative active site [active] 283942001298 catalytic triad [active] 283942001299 dimer interface [polypeptide binding]; other site 283942001300 protease TldD; Provisional; Region: tldD; PRK10735 283942001301 hypothetical protein; Provisional; Region: PRK05255 283942001302 peptidase PmbA; Provisional; Region: PRK11040 283942001303 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 283942001304 MgtE intracellular N domain; Region: MgtE_N; smart00924 283942001305 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 283942001306 Divalent cation transporter; Region: MgtE; cl00786 283942001307 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 283942001308 dimerization domain swap beta strand [polypeptide binding]; other site 283942001309 regulatory protein interface [polypeptide binding]; other site 283942001310 active site 283942001311 regulatory phosphorylation site [posttranslational modification]; other site 283942001312 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 283942001313 AAA domain; Region: AAA_18; pfam13238 283942001314 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 283942001315 active site 283942001316 phosphorylation site [posttranslational modification] 283942001317 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 283942001318 30S subunit binding site; other site 283942001319 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 283942001320 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 283942001321 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 283942001322 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 283942001323 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 283942001324 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 283942001325 Walker A/P-loop; other site 283942001326 ATP binding site [chemical binding]; other site 283942001327 Q-loop/lid; other site 283942001328 ABC transporter signature motif; other site 283942001329 Walker B; other site 283942001330 D-loop; other site 283942001331 H-loop/switch region; other site 283942001332 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 283942001333 OstA-like protein; Region: OstA; pfam03968 283942001334 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 283942001335 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 283942001336 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 283942001337 active site 283942001338 motif I; other site 283942001339 motif II; other site 283942001340 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 283942001341 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 283942001342 putative active site [active] 283942001343 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 283942001344 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 283942001345 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 283942001346 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 283942001347 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 283942001348 Walker A/P-loop; other site 283942001349 ATP binding site [chemical binding]; other site 283942001350 Q-loop/lid; other site 283942001351 ABC transporter signature motif; other site 283942001352 Walker B; other site 283942001353 D-loop; other site 283942001354 H-loop/switch region; other site 283942001355 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 283942001356 Permease; Region: Permease; cl00510 283942001357 mce related protein; Region: MCE; pfam02470 283942001358 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 283942001359 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 283942001360 anti sigma factor interaction site; other site 283942001361 regulatory phosphorylation site [posttranslational modification]; other site 283942001362 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 283942001363 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 283942001364 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 283942001365 hinge; other site 283942001366 active site 283942001367 serine endoprotease; Provisional; Region: PRK10898 283942001368 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 283942001369 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 283942001370 protein binding site [polypeptide binding]; other site 283942001371 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 283942001372 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 283942001373 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 283942001374 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 283942001375 protein binding site [polypeptide binding]; other site 283942001376 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 283942001377 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 283942001378 Predicted ATPase [General function prediction only]; Region: COG1485 283942001379 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 283942001380 23S rRNA interface [nucleotide binding]; other site 283942001381 L3 interface [polypeptide binding]; other site 283942001382 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 283942001383 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 283942001384 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 283942001385 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 283942001386 [2Fe-2S] cluster binding site [ion binding]; other site 283942001387 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 283942001388 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 283942001389 Qi binding site; other site 283942001390 intrachain domain interface; other site 283942001391 interchain domain interface [polypeptide binding]; other site 283942001392 heme bH binding site [chemical binding]; other site 283942001393 heme bL binding site [chemical binding]; other site 283942001394 Qo binding site; other site 283942001395 interchain domain interface [polypeptide binding]; other site 283942001396 intrachain domain interface; other site 283942001397 Qi binding site; other site 283942001398 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 283942001399 Qo binding site; other site 283942001400 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 283942001401 stringent starvation protein A; Provisional; Region: sspA; PRK09481 283942001402 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 283942001403 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 283942001404 dimer interface [polypeptide binding]; other site 283942001405 N-terminal domain interface [polypeptide binding]; other site 283942001406 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 283942001407 outer membrane lipoprotein; Provisional; Region: PRK11023 283942001408 BON domain; Region: BON; pfam04972 283942001409 BON domain; Region: BON; pfam04972 283942001410 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 283942001411 dimer interface [polypeptide binding]; other site 283942001412 active site 283942001413 hypothetical protein; Reviewed; Region: PRK12497 283942001414 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 283942001415 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 283942001416 putative ligand binding site [chemical binding]; other site 283942001417 Predicted methyltransferases [General function prediction only]; Region: COG0313 283942001418 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 283942001419 putative SAM binding site [chemical binding]; other site 283942001420 putative homodimer interface [polypeptide binding]; other site 283942001421 CHASE domain; Region: CHASE; cl01369 283942001422 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942001423 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942001424 metal binding site [ion binding]; metal-binding site 283942001425 active site 283942001426 I-site; other site 283942001427 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 283942001428 cell division protein MraZ; Reviewed; Region: PRK00326 283942001429 MraZ protein; Region: MraZ; pfam02381 283942001430 MraZ protein; Region: MraZ; pfam02381 283942001431 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 283942001432 MraW methylase family; Region: Methyltransf_5; cl17771 283942001433 Cell division protein FtsL; Region: FtsL; pfam04999 283942001434 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 283942001435 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 283942001436 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 283942001437 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 283942001438 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 283942001439 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 283942001440 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 283942001441 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 283942001442 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 283942001443 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 283942001444 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 283942001445 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 283942001446 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 283942001447 Mg++ binding site [ion binding]; other site 283942001448 putative catalytic motif [active] 283942001449 putative substrate binding site [chemical binding]; other site 283942001450 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 283942001451 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 283942001452 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 283942001453 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 283942001454 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 283942001455 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 283942001456 active site 283942001457 homodimer interface [polypeptide binding]; other site 283942001458 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 283942001459 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 283942001460 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 283942001461 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 283942001462 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 283942001463 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 283942001464 ATP-grasp domain; Region: ATP-grasp_4; cl17255 283942001465 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 283942001466 Cell division protein FtsQ; Region: FtsQ; pfam03799 283942001467 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 283942001468 Cell division protein FtsA; Region: FtsA; smart00842 283942001469 Cell division protein FtsA; Region: FtsA; pfam14450 283942001470 cell division protein FtsZ; Validated; Region: PRK09330 283942001471 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 283942001472 nucleotide binding site [chemical binding]; other site 283942001473 SulA interaction site; other site 283942001474 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 283942001475 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 283942001476 Protein of unknown function (DUF721); Region: DUF721; pfam05258 283942001477 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 283942001478 Peptidase family M23; Region: Peptidase_M23; pfam01551 283942001479 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 283942001480 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 283942001481 SEC-C motif; Region: SEC-C; pfam02810 283942001482 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 283942001483 active site 283942001484 8-oxo-dGMP binding site [chemical binding]; other site 283942001485 nudix motif; other site 283942001486 metal binding site [ion binding]; metal-binding site 283942001487 Domain of unknown function (DUF329); Region: DUF329; cl01144 283942001488 hypothetical protein; Provisional; Region: PRK05287 283942001489 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 283942001490 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 283942001491 CoA-binding site [chemical binding]; other site 283942001492 ATP-binding [chemical binding]; other site 283942001493 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 283942001494 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 283942001495 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 283942001496 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 283942001497 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 283942001498 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 283942001499 Type II/IV secretion system protein; Region: T2SE; pfam00437 283942001500 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 283942001501 Walker A motif; other site 283942001502 ATP binding site [chemical binding]; other site 283942001503 Walker B motif; other site 283942001504 putative major pilin subunit; Provisional; Region: PRK10574 283942001505 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 283942001506 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 283942001507 dimerization interface [polypeptide binding]; other site 283942001508 active site 283942001509 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 283942001510 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 283942001511 amidase catalytic site [active] 283942001512 Zn binding residues [ion binding]; other site 283942001513 substrate binding site [chemical binding]; other site 283942001514 regulatory protein AmpE; Provisional; Region: PRK10987 283942001515 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 283942001516 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 283942001517 DNA-binding site [nucleotide binding]; DNA binding site 283942001518 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 283942001519 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 283942001520 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 283942001521 dimer interface [polypeptide binding]; other site 283942001522 TPP-binding site [chemical binding]; other site 283942001523 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 283942001524 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 283942001525 E3 interaction surface; other site 283942001526 lipoyl attachment site [posttranslational modification]; other site 283942001527 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 283942001528 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 283942001529 E3 interaction surface; other site 283942001530 lipoyl attachment site [posttranslational modification]; other site 283942001531 e3 binding domain; Region: E3_binding; pfam02817 283942001532 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 283942001533 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 283942001534 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 283942001535 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 283942001536 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 283942001537 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 283942001538 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 283942001539 active site 283942001540 Zn binding site [ion binding]; other site 283942001541 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 283942001542 HlyD family secretion protein; Region: HlyD_3; pfam13437 283942001543 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 283942001544 Transcriptional regulator [Transcription]; Region: LysR; COG0583 283942001545 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 283942001546 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 283942001547 dimerization interface [polypeptide binding]; other site 283942001548 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 283942001549 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 283942001550 HlyD family secretion protein; Region: HlyD_3; pfam13437 283942001551 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 283942001552 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 283942001553 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 283942001554 substrate binding site [chemical binding]; other site 283942001555 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 283942001556 substrate binding site [chemical binding]; other site 283942001557 ligand binding site [chemical binding]; other site 283942001558 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 283942001559 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 283942001560 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 283942001561 arginine repressor; Provisional; Region: PRK05066 283942001562 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 283942001563 malate dehydrogenase; Provisional; Region: PRK05086 283942001564 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 283942001565 NAD binding site [chemical binding]; other site 283942001566 dimerization interface [polypeptide binding]; other site 283942001567 Substrate binding site [chemical binding]; other site 283942001568 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 283942001569 Transposase; Region: DEDD_Tnp_IS110; pfam01548 283942001570 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 283942001571 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 283942001572 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 283942001573 substrate binding pocket [chemical binding]; other site 283942001574 chain length determination region; other site 283942001575 substrate-Mg2+ binding site; other site 283942001576 catalytic residues [active] 283942001577 aspartate-rich region 1; other site 283942001578 active site lid residues [active] 283942001579 aspartate-rich region 2; other site 283942001580 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 283942001581 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 283942001582 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 283942001583 GTPase CgtA; Reviewed; Region: obgE; PRK12298 283942001584 GTP1/OBG; Region: GTP1_OBG; pfam01018 283942001585 Obg GTPase; Region: Obg; cd01898 283942001586 G1 box; other site 283942001587 GTP/Mg2+ binding site [chemical binding]; other site 283942001588 Switch I region; other site 283942001589 G2 box; other site 283942001590 G3 box; other site 283942001591 Switch II region; other site 283942001592 G4 box; other site 283942001593 G5 box; other site 283942001594 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 283942001595 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 283942001596 folate binding site [chemical binding]; other site 283942001597 NADP+ binding site [chemical binding]; other site 283942001598 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 283942001599 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cl00653 283942001600 TAP-like protein; Region: Abhydrolase_4; pfam08386 283942001601 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 283942001602 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 283942001603 ATP-binding cassette domain of the Na+ transporter; Region: ABC_NatA_sodium_exporter; cd03266 283942001604 Walker A/P-loop; other site 283942001605 ATP binding site [chemical binding]; other site 283942001606 Q-loop/lid; other site 283942001607 ABC transporter signature motif; other site 283942001608 Walker B; other site 283942001609 D-loop; other site 283942001610 H-loop/switch region; other site 283942001611 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 283942001612 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 283942001613 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 283942001614 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 283942001615 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 283942001616 Coenzyme A binding pocket [chemical binding]; other site 283942001617 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 283942001618 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 283942001619 homotetramer interface [polypeptide binding]; other site 283942001620 ligand binding site [chemical binding]; other site 283942001621 catalytic site [active] 283942001622 NAD binding site [chemical binding]; other site 283942001623 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...; Region: adenosine_kinase; cd01168 283942001624 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 283942001625 substrate binding site [chemical binding]; other site 283942001626 ATP binding site [chemical binding]; other site 283942001627 CobD/Cbib protein; Region: CobD_Cbib; cl00561 283942001628 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 283942001629 putative GTP cyclohydrolase; Provisional; Region: PRK13674 283942001630 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 283942001631 putative binding surface; other site 283942001632 active site 283942001633 Response regulator receiver domain; Region: Response_reg; pfam00072 283942001634 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942001635 active site 283942001636 phosphorylation site [posttranslational modification] 283942001637 intermolecular recognition site; other site 283942001638 dimerization interface [polypeptide binding]; other site 283942001639 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 283942001640 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 283942001641 dimerization interface [polypeptide binding]; other site 283942001642 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 283942001643 dimer interface [polypeptide binding]; other site 283942001644 phosphorylation site [posttranslational modification] 283942001645 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942001646 ATP binding site [chemical binding]; other site 283942001647 Mg2+ binding site [ion binding]; other site 283942001648 G-X-G motif; other site 283942001649 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 283942001650 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 283942001651 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 283942001652 S-adenosylmethionine binding site [chemical binding]; other site 283942001653 Protein of unknown function (DUF342); Region: DUF342; pfam03961 283942001654 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 283942001655 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 283942001656 putative active site [active] 283942001657 Zn binding site [ion binding]; other site 283942001658 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 283942001659 ATP-grasp domain; Region: ATP-grasp_4; cl17255 283942001660 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 283942001661 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 283942001662 Transposase; Region: DEDD_Tnp_IS110; pfam01548 283942001663 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 283942001664 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 283942001665 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 283942001666 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 283942001667 putative DNA-binding cleft [nucleotide binding]; other site 283942001668 putative DNA clevage site; other site 283942001669 molecular lever; other site 283942001670 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 283942001671 putative active site [active] 283942001672 Ap4A binding site [chemical binding]; other site 283942001673 nudix motif; other site 283942001674 putative metal binding site [ion binding]; other site 283942001675 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 283942001676 GAF domain; Region: GAF; pfam01590 283942001677 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 283942001678 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 283942001679 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 283942001680 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 283942001681 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 283942001682 thymidylate synthase; Reviewed; Region: thyA; PRK01827 283942001683 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 283942001684 dimerization interface [polypeptide binding]; other site 283942001685 active site 283942001686 Transposase IS200 like; Region: Y1_Tnp; cl00848 283942001687 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 283942001688 Transposase; Region: DEDD_Tnp_IS110; pfam01548 283942001689 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 283942001690 Response regulator receiver domain; Region: Response_reg; pfam00072 283942001691 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942001692 active site 283942001693 phosphorylation site [posttranslational modification] 283942001694 intermolecular recognition site; other site 283942001695 dimerization interface [polypeptide binding]; other site 283942001696 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 283942001697 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 283942001698 PAS domain; Region: PAS_9; pfam13426 283942001699 putative active site [active] 283942001700 heme pocket [chemical binding]; other site 283942001701 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 283942001702 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 283942001703 putative ATP binding site [chemical binding]; other site 283942001704 putative substrate interface [chemical binding]; other site 283942001705 Fe-S metabolism associated domain; Region: SufE; cl00951 283942001706 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 283942001707 Ligand binding site [chemical binding]; other site 283942001708 Electron transfer flavoprotein domain; Region: ETF; pfam01012 283942001709 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 283942001710 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 283942001711 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 283942001712 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 283942001713 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 283942001714 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 283942001715 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 283942001716 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 283942001717 ligand binding site; other site 283942001718 tetramer interface; other site 283942001719 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 283942001720 NeuB family; Region: NeuB; pfam03102 283942001721 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 283942001722 NeuB binding interface [polypeptide binding]; other site 283942001723 putative substrate binding site [chemical binding]; other site 283942001724 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 283942001725 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 283942001726 active site 283942001727 homodimer interface [polypeptide binding]; other site 283942001728 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 283942001729 ligand binding site [chemical binding]; other site 283942001730 active site 283942001731 UGI interface [polypeptide binding]; other site 283942001732 catalytic site [active] 283942001733 Transcriptional regulator [Transcription]; Region: LysR; COG0583 283942001734 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 283942001735 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 283942001736 dimerization interface [polypeptide binding]; other site 283942001737 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 283942001738 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 283942001739 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 283942001740 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 283942001741 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 283942001742 non-specific DNA binding site [nucleotide binding]; other site 283942001743 salt bridge; other site 283942001744 sequence-specific DNA binding site [nucleotide binding]; other site 283942001745 disrupted HipA-like protein 283942001746 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 283942001747 AAA domain; Region: AAA_14; pfam13173 283942001748 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 283942001749 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 283942001750 Beta-Casp domain; Region: Beta-Casp; smart01027 283942001751 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 283942001752 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 283942001753 Fic/DOC family; Region: Fic; pfam02661 283942001754 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 283942001755 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 283942001756 G1 box; other site 283942001757 G1 box; other site 283942001758 GTP/Mg2+ binding site [chemical binding]; other site 283942001759 GTP/Mg2+ binding site [chemical binding]; other site 283942001760 G2 box; other site 283942001761 Switch I region; other site 283942001762 G3 box; other site 283942001763 Switch II region; other site 283942001764 G4 box; other site 283942001765 CCC1-related protein family; Region: CCC1_like_1; cd02437 283942001766 G5 box; other site 283942001767 CCC1-related family of proteins; Region: CCC1_like; cl00278 283942001768 Predicted GTPase [General function prediction only]; Region: COG3596 283942001769 50S ribosome-binding GTPase; Region: MMR_HSR1; pfam01926 283942001770 G1 box; other site 283942001771 GTP/Mg2+ binding site [chemical binding]; other site 283942001772 G2 box; other site 283942001773 G3 box; other site 283942001774 Switch II region; other site 283942001775 G4 box; other site 283942001776 G5 box; other site 283942001777 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 283942001778 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 283942001779 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 283942001780 G1 box; other site 283942001781 GTP/Mg2+ binding site [chemical binding]; other site 283942001782 G2 box; other site 283942001783 Switch I region; other site 283942001784 Switch II region; other site 283942001785 G3 box; other site 283942001786 G4 box; other site 283942001787 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 283942001788 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 283942001789 Walker A motif; other site 283942001790 ATP binding site [chemical binding]; other site 283942001791 Walker B motif; other site 283942001792 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 283942001793 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 283942001794 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 283942001795 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 283942001796 Chain length determinant protein; Region: Wzz; cl15801 283942001797 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 283942001798 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 283942001799 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 283942001800 Walker A/P-loop; other site 283942001801 ATP binding site [chemical binding]; other site 283942001802 Q-loop/lid; other site 283942001803 ABC transporter signature motif; other site 283942001804 Walker B; other site 283942001805 D-loop; other site 283942001806 H-loop/switch region; other site 283942001807 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 283942001808 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 283942001809 NAD binding site [chemical binding]; other site 283942001810 substrate binding site [chemical binding]; other site 283942001811 homodimer interface [polypeptide binding]; other site 283942001812 active site 283942001813 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 283942001814 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 283942001815 substrate binding site; other site 283942001816 tetramer interface; other site 283942001817 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 283942001818 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 283942001819 trimer interface [polypeptide binding]; other site 283942001820 active site 283942001821 substrate binding site [chemical binding]; other site 283942001822 CoA binding site [chemical binding]; other site 283942001823 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 283942001824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 283942001825 NAD(P) binding site [chemical binding]; other site 283942001826 active site 283942001827 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 283942001828 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 283942001829 inhibitor-cofactor binding pocket; inhibition site 283942001830 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283942001831 catalytic residue [active] 283942001832 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 283942001833 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 283942001834 trimer interface [polypeptide binding]; other site 283942001835 active site 283942001836 substrate binding site [chemical binding]; other site 283942001837 CoA binding site [chemical binding]; other site 283942001838 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 283942001839 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 283942001840 NAD(P) binding site [chemical binding]; other site 283942001841 homodimer interface [polypeptide binding]; other site 283942001842 substrate binding site [chemical binding]; other site 283942001843 active site 283942001844 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 283942001845 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 283942001846 inhibitor-cofactor binding pocket; inhibition site 283942001847 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283942001848 catalytic residue [active] 283942001849 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 283942001850 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 283942001851 active site 283942001852 homodimer interface [polypeptide binding]; other site 283942001853 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 283942001854 NeuB family; Region: NeuB; pfam03102 283942001855 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 283942001856 NeuB binding interface [polypeptide binding]; other site 283942001857 putative substrate binding site [chemical binding]; other site 283942001858 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 283942001859 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 283942001860 putative trimer interface [polypeptide binding]; other site 283942001861 putative CoA binding site [chemical binding]; other site 283942001862 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 283942001863 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 283942001864 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 283942001865 Substrate binding site; other site 283942001866 metal-binding site 283942001867 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 283942001868 ligand binding site; other site 283942001869 tetramer interface; other site 283942001870 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 283942001871 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 283942001872 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 283942001873 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 283942001874 putative glycosyl transferase; Provisional; Region: PRK10018 283942001875 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 283942001876 active site 283942001877 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 283942001878 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 283942001879 putative ADP-binding pocket [chemical binding]; other site 283942001880 UDP-glucose 4-epimerase; Region: PLN02240 283942001881 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 283942001882 NAD binding site [chemical binding]; other site 283942001883 homodimer interface [polypeptide binding]; other site 283942001884 active site 283942001885 substrate binding site [chemical binding]; other site 283942001886 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 283942001887 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 283942001888 NAD(P) binding site [chemical binding]; other site 283942001889 active site 283942001890 Bacterial sugar transferase; Region: Bac_transf; pfam02397 283942001891 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 283942001892 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 283942001893 putative NAD(P) binding site [chemical binding]; other site 283942001894 active site 283942001895 putative substrate binding site [chemical binding]; other site 283942001896 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 283942001897 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 283942001898 SLBB domain; Region: SLBB; pfam10531 283942001899 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 283942001900 SLBB domain; Region: SLBB; pfam10531 283942001901 SLBB domain; Region: SLBB; pfam10531 283942001902 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 283942001903 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 283942001904 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 283942001905 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 283942001906 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 283942001907 NAD(P) binding site [chemical binding]; other site 283942001908 homodimer interface [polypeptide binding]; other site 283942001909 substrate binding site [chemical binding]; other site 283942001910 active site 283942001911 Phosphoglucose isomerase; Region: PGI; pfam00342 283942001912 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 283942001913 active site 283942001914 dimer interface [polypeptide binding]; other site 283942001915 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 283942001916 dimer interface [polypeptide binding]; other site 283942001917 active site 283942001918 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 283942001919 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...; Region: CysQ; cd01638 283942001920 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 283942001921 active site 283942001922 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 283942001923 Transposase; Region: DEDD_Tnp_IS110; pfam01548 283942001924 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 283942001925 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 283942001926 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 283942001927 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 283942001928 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 283942001929 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 283942001930 active site 283942001931 GMP synthase; Reviewed; Region: guaA; PRK00074 283942001932 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 283942001933 AMP/PPi binding site [chemical binding]; other site 283942001934 candidate oxyanion hole; other site 283942001935 catalytic triad [active] 283942001936 potential glutamine specificity residues [chemical binding]; other site 283942001937 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 283942001938 ATP Binding subdomain [chemical binding]; other site 283942001939 Ligand Binding sites [chemical binding]; other site 283942001940 Dimerization subdomain; other site 283942001941 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 283942001942 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 283942001943 putative catalytic site [active] 283942001944 putative phosphate binding site [ion binding]; other site 283942001945 putative metal binding site [ion binding]; other site 283942001946 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 283942001947 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 283942001948 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 283942001949 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 283942001950 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 283942001951 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 283942001952 nucleoside/Zn binding site; other site 283942001953 dimer interface [polypeptide binding]; other site 283942001954 catalytic motif [active] 283942001955 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 283942001956 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 283942001957 metal binding site [ion binding]; metal-binding site 283942001958 putative dimer interface [polypeptide binding]; other site 283942001959 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 283942001960 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 283942001961 substrate binding pocket [chemical binding]; other site 283942001962 membrane-bound complex binding site; other site 283942001963 hinge residues; other site 283942001964 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 283942001965 N-acetyl-D-glucosamine binding site [chemical binding]; other site 283942001966 catalytic residue [active] 283942001967 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 283942001968 Transposase; Region: DEDD_Tnp_IS110; pfam01548 283942001969 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 283942001970 Metallo-peptidase family M12B Reprolysin-like; Region: Reprolysin_3; pfam13582 283942001971 Peptidase M66; Region: Peptidase_M66; pfam10462 283942001972 active site 283942001973 active site 283942001974 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 283942001975 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 283942001976 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 283942001977 heterodimer interface [polypeptide binding]; other site 283942001978 homodimer interface [polypeptide binding]; other site 283942001979 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 283942001980 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 283942001981 dimerization interface [polypeptide binding]; other site 283942001982 ATP binding site [chemical binding]; other site 283942001983 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 283942001984 dimerization interface [polypeptide binding]; other site 283942001985 ATP binding site [chemical binding]; other site 283942001986 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 283942001987 putative active site [active] 283942001988 catalytic triad [active] 283942001989 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 283942001990 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 283942001991 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 283942001992 Protein of unknown function (DUF998); Region: DUF998; pfam06197 283942001993 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 283942001994 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 283942001995 metal-binding site [ion binding] 283942001996 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 283942001997 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 283942001998 motif II; other site 283942001999 glutamate racemase; Provisional; Region: PRK00865 283942002000 malate dehydrogenase; Provisional; Region: PRK13529 283942002001 Malic enzyme, N-terminal domain; Region: malic; pfam00390 283942002002 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 283942002003 NAD(P) binding site [chemical binding]; other site 283942002004 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 283942002005 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 283942002006 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 283942002007 catalytic residue [active] 283942002008 azurin; Region: azurin; TIGR02695 283942002009 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 283942002010 HlyD family secretion protein; Region: HlyD_3; pfam13437 283942002011 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 283942002012 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 283942002013 putative metal binding site [ion binding]; other site 283942002014 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 283942002015 GAF domain; Region: GAF; pfam01590 283942002016 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 283942002017 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942002018 ATP binding site [chemical binding]; other site 283942002019 Mg2+ binding site [ion binding]; other site 283942002020 G-X-G motif; other site 283942002021 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 283942002022 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 283942002023 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 283942002024 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 283942002025 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 283942002026 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 283942002027 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 283942002028 Transcriptional regulator [Transcription]; Region: LysR; COG0583 283942002029 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 283942002030 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 283942002031 substrate binding pocket [chemical binding]; other site 283942002032 dimerization interface [polypeptide binding]; other site 283942002033 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 283942002034 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; pfam06315 283942002035 isocitrate lyase; Provisional; Region: PRK15063 283942002036 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 283942002037 tetramer interface [polypeptide binding]; other site 283942002038 active site 283942002039 Mg2+/Mn2+ binding site [ion binding]; other site 283942002040 malate synthase A; Region: malate_syn_A; TIGR01344 283942002041 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 283942002042 active site 283942002043 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 283942002044 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 283942002045 dimerization interface [polypeptide binding]; other site 283942002046 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 283942002047 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 283942002048 dimer interface [polypeptide binding]; other site 283942002049 putative CheW interface [polypeptide binding]; other site 283942002050 acetylornithine deacetylase; Provisional; Region: PRK05111 283942002051 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 283942002052 metal binding site [ion binding]; metal-binding site 283942002053 putative dimer interface [polypeptide binding]; other site 283942002054 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 283942002055 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 283942002056 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 283942002057 nucleotide binding site [chemical binding]; other site 283942002058 substrate binding site [chemical binding]; other site 283942002059 ornithine carbamoyltransferase; Provisional; Region: PRK14805 283942002060 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 283942002061 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 283942002062 argininosuccinate synthase; Provisional; Region: PRK13820 283942002063 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 283942002064 ANP binding site [chemical binding]; other site 283942002065 Substrate Binding Site II [chemical binding]; other site 283942002066 Substrate Binding Site I [chemical binding]; other site 283942002067 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 283942002068 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 283942002069 active sites [active] 283942002070 tetramer interface [polypeptide binding]; other site 283942002071 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 283942002072 Coenzyme A binding pocket [chemical binding]; other site 283942002073 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 283942002074 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 283942002075 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 283942002076 Divergent PAP2 family; Region: DUF212; cl00855 283942002077 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 283942002078 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 283942002079 Transposase; Region: DEDD_Tnp_IS110; pfam01548 283942002080 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 283942002081 Mechanosensitive ion channel; Region: MS_channel; pfam00924 283942002082 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 283942002083 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 283942002084 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 283942002085 ABC transporter; Region: ABC_tran_2; pfam12848 283942002086 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 283942002087 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 283942002088 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 283942002089 C-terminal domain interface [polypeptide binding]; other site 283942002090 GSH binding site (G-site) [chemical binding]; other site 283942002091 dimer interface [polypeptide binding]; other site 283942002092 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 283942002093 N-terminal domain interface [polypeptide binding]; other site 283942002094 putative dimer interface [polypeptide binding]; other site 283942002095 active site 283942002096 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 283942002097 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 283942002098 Amidohydrolase; Region: Amidohydro_2; pfam04909 283942002099 Predicted membrane protein [Function unknown]; Region: COG2855 283942002100 Transcriptional regulator [Transcription]; Region: LysR; COG0583 283942002101 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 283942002102 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 283942002103 putative dimerization interface [polypeptide binding]; other site 283942002104 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 283942002105 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 283942002106 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 283942002107 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 283942002108 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 283942002109 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 283942002110 active site 283942002111 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 283942002112 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 283942002113 DNA binding residues [nucleotide binding] 283942002114 dimer interface [polypeptide binding]; other site 283942002115 putative metal binding site [ion binding]; other site 283942002116 Heavy-metal-associated domain; Region: HMA; pfam00403 283942002117 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 283942002118 lipoprotein signal peptidase; Provisional; Region: PRK14776 283942002119 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 283942002120 Transposase; Region: DDE_Tnp_ISL3; pfam01610 283942002121 allantoate amidohydrolase; Reviewed; Region: PRK12893 283942002122 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 283942002123 MPN+ (JAMM) motif; other site 283942002124 Zinc-binding site [ion binding]; other site 283942002125 Fic/DOC family; Region: Fic; cl00960 283942002126 RadC-like JAB domain; Region: RadC; pfam04002 283942002127 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 283942002128 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 283942002129 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 283942002130 HsdM N-terminal domain; Region: HsdM_N; pfam12161 283942002131 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 283942002132 Methyltransferase domain; Region: Methyltransf_26; pfam13659 283942002133 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 283942002134 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 283942002135 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 283942002136 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 283942002137 DEAD-like helicases superfamily; Region: DEXDc; smart00487 283942002138 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 283942002139 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 283942002140 active site 283942002141 DNA binding site [nucleotide binding] 283942002142 Int/Topo IB signature motif; other site 283942002143 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 283942002144 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 283942002145 synthetase active site [active] 283942002146 NTP binding site [chemical binding]; other site 283942002147 metal binding site [ion binding]; metal-binding site 283942002148 integrase; Provisional; Region: PRK09692 283942002149 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 283942002150 active site 283942002151 Int/Topo IB signature motif; other site 283942002152 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 283942002153 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 283942002154 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 283942002155 GIY-YIG motif/motif A; other site 283942002156 active site 283942002157 catalytic site [active] 283942002158 putative DNA binding site [nucleotide binding]; other site 283942002159 metal binding site [ion binding]; metal-binding site 283942002160 UvrB/uvrC motif; Region: UVR; pfam02151 283942002161 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 283942002162 Helix-hairpin-helix motif; Region: HHH; pfam00633 283942002163 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 283942002164 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 283942002165 DNA binding residues [nucleotide binding] 283942002166 dimerization interface [polypeptide binding]; other site 283942002167 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 283942002168 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 283942002169 minor groove reading motif; other site 283942002170 helix-hairpin-helix signature motif; other site 283942002171 substrate binding pocket [chemical binding]; other site 283942002172 active site 283942002173 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 283942002174 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 283942002175 active site 283942002176 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 283942002177 active site 2 [active] 283942002178 active site 1 [active] 283942002179 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 283942002180 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 283942002181 YccA-like proteins; Region: YccA_like; cd10433 283942002182 sulfur relay protein TusD/DsrE; Region: sulf_tusD_dsrE; TIGR03012 283942002183 DsrE/DsrF-like family; Region: DrsE; cl00672 283942002184 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 283942002185 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 283942002186 seryl-tRNA synthetase; Provisional; Region: PRK05431 283942002187 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 283942002188 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 283942002189 dimer interface [polypeptide binding]; other site 283942002190 active site 283942002191 motif 1; other site 283942002192 motif 2; other site 283942002193 motif 3; other site 283942002194 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 283942002195 recombination factor protein RarA; Reviewed; Region: PRK13342 283942002196 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 283942002197 Walker A motif; other site 283942002198 ATP binding site [chemical binding]; other site 283942002199 Walker B motif; other site 283942002200 arginine finger; other site 283942002201 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 283942002202 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 283942002203 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 283942002204 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 283942002205 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 283942002206 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 283942002207 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 283942002208 putative DNA binding site [nucleotide binding]; other site 283942002209 putative Zn2+ binding site [ion binding]; other site 283942002210 AsnC family; Region: AsnC_trans_reg; pfam01037 283942002211 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 283942002212 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 283942002213 hexamer interface [polypeptide binding]; other site 283942002214 ligand binding site [chemical binding]; other site 283942002215 putative active site [active] 283942002216 NAD(P) binding site [chemical binding]; other site 283942002217 thioredoxin reductase; Provisional; Region: PRK10262 283942002218 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 283942002219 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 283942002220 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 283942002221 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 283942002222 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 283942002223 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 283942002224 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 283942002225 rRNA binding site [nucleotide binding]; other site 283942002226 predicted 30S ribosome binding site; other site 283942002227 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 283942002228 Clp amino terminal domain; Region: Clp_N; pfam02861 283942002229 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 283942002230 Walker A motif; other site 283942002231 ATP binding site [chemical binding]; other site 283942002232 Walker B motif; other site 283942002233 arginine finger; other site 283942002234 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 283942002235 Walker A motif; other site 283942002236 ATP binding site [chemical binding]; other site 283942002237 Walker B motif; other site 283942002238 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 283942002239 Uncharacterized conserved protein [Function unknown]; Region: COG2127 283942002240 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 283942002241 DNA-binding site [nucleotide binding]; DNA binding site 283942002242 RNA-binding motif; other site 283942002243 nucleoid-associated protein NdpA; Validated; Region: PRK00378 283942002244 Nucleoid-associated protein [General function prediction only]; Region: COG3081 283942002245 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 283942002246 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 283942002247 active site 283942002248 DNA binding site [nucleotide binding] 283942002249 Int/Topo IB signature motif; other site 283942002250 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 283942002251 Fic family protein [Function unknown]; Region: COG3177 283942002252 Fic/DOC family; Region: Fic; pfam02661 283942002253 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 283942002254 putative DNA binding site [nucleotide binding]; other site 283942002255 putative Zn2+ binding site [ion binding]; other site 283942002256 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 283942002257 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 283942002258 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 283942002259 conserved hypothetical protein; Region: TIGR02285 283942002260 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 283942002261 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 283942002262 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 283942002263 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 283942002264 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 283942002265 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 283942002266 NAD(P) binding site [chemical binding]; other site 283942002267 active site 283942002268 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 283942002269 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 283942002270 asparagine synthetase AsnA; Provisional; Region: PRK05425 283942002271 motif 1; other site 283942002272 dimer interface [polypeptide binding]; other site 283942002273 active site 283942002274 motif 2; other site 283942002275 motif 3; other site 283942002276 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 283942002277 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 283942002278 putative DNA binding site [nucleotide binding]; other site 283942002279 putative Zn2+ binding site [ion binding]; other site 283942002280 AsnC family; Region: AsnC_trans_reg; pfam01037 283942002281 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 283942002282 putative active site [active] 283942002283 Zn binding site [ion binding]; other site 283942002284 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 283942002285 Carbon starvation protein CstA; Region: CstA; pfam02554 283942002286 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 283942002287 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 283942002288 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 283942002289 DTAP/Switch II; other site 283942002290 Switch I; other site 283942002291 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 283942002292 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 283942002293 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 283942002294 putative NAD(P) binding site [chemical binding]; other site 283942002295 dimer interface [polypeptide binding]; other site 283942002296 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 283942002297 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 283942002298 HlyD family secretion protein; Region: HlyD_3; pfam13437 283942002299 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 283942002300 Protein export membrane protein; Region: SecD_SecF; cl14618 283942002301 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 283942002302 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 283942002303 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 283942002304 Ligand binding site; other site 283942002305 Putative Catalytic site; other site 283942002306 DXD motif; other site 283942002307 Predicted membrane protein [Function unknown]; Region: COG2246 283942002308 GtrA-like protein; Region: GtrA; pfam04138 283942002309 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 283942002310 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 283942002311 PA/protease or protease-like domain interface [polypeptide binding]; other site 283942002312 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 283942002313 Peptidase family M28; Region: Peptidase_M28; pfam04389 283942002314 metal binding site [ion binding]; metal-binding site 283942002315 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 283942002316 Uncharacterized conserved protein [Function unknown]; Region: COG0397 283942002317 hypothetical protein; Validated; Region: PRK00029 283942002318 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 283942002319 phosphate binding site [ion binding]; other site 283942002320 putative substrate binding pocket [chemical binding]; other site 283942002321 dimer interface [polypeptide binding]; other site 283942002322 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 283942002323 trimer interface [polypeptide binding]; other site 283942002324 active site 283942002325 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 283942002326 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 283942002327 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 283942002328 active site 283942002329 HIGH motif; other site 283942002330 KMSKS motif; other site 283942002331 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 283942002332 anticodon binding site; other site 283942002333 tRNA binding surface [nucleotide binding]; other site 283942002334 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 283942002335 dimer interface [polypeptide binding]; other site 283942002336 putative tRNA-binding site [nucleotide binding]; other site 283942002337 PilZ domain; Region: PilZ; pfam07238 283942002338 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 283942002339 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 283942002340 nucleotide binding site/active site [active] 283942002341 HIT family signature motif; other site 283942002342 catalytic residue [active] 283942002343 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 283942002344 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 283942002345 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 283942002346 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 283942002347 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 283942002348 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 283942002349 maleylacetoacetate isomerase; Region: maiA; TIGR01262 283942002350 C-terminal domain interface [polypeptide binding]; other site 283942002351 GSH binding site (G-site) [chemical binding]; other site 283942002352 putative dimer interface [polypeptide binding]; other site 283942002353 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 283942002354 dimer interface [polypeptide binding]; other site 283942002355 N-terminal domain interface [polypeptide binding]; other site 283942002356 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 283942002357 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 283942002358 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 283942002359 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 283942002360 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 283942002361 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 283942002362 dimer interface [polypeptide binding]; other site 283942002363 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 283942002364 active site 283942002365 Fe binding site [ion binding]; other site 283942002366 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 283942002367 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 283942002368 putative aromatic amino acid binding site; other site 283942002369 PAS domain; Region: PAS; smart00091 283942002370 putative active site [active] 283942002371 heme pocket [chemical binding]; other site 283942002372 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 283942002373 Walker A motif; other site 283942002374 ATP binding site [chemical binding]; other site 283942002375 Walker B motif; other site 283942002376 arginine finger; other site 283942002377 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 283942002378 aromatic arch; other site 283942002379 DCoH dimer interaction site [polypeptide binding]; other site 283942002380 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 283942002381 DCoH tetramer interaction site [polypeptide binding]; other site 283942002382 substrate binding site [chemical binding]; other site 283942002383 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 283942002384 cofactor binding site; other site 283942002385 metal binding site [ion binding]; metal-binding site 283942002386 methionine gamma-lyase; Provisional; Region: PRK06234 283942002387 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 283942002388 homodimer interface [polypeptide binding]; other site 283942002389 substrate-cofactor binding pocket; other site 283942002390 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283942002391 catalytic residue [active] 283942002392 hypothetical protein; Provisional; Region: PRK05415 283942002393 Domain of unknown function (DUF697); Region: DUF697; pfam05128 283942002394 YcjX-like family, DUF463; Region: DUF463; pfam04317 283942002395 phage shock protein C; Region: phageshock_pspC; TIGR02978 283942002396 PspC domain; Region: PspC; pfam04024 283942002397 phage shock protein B; Provisional; Region: pspB; PRK09458 283942002398 phage shock protein A; Region: phageshock_pspA; TIGR02977 283942002399 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 283942002400 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 283942002401 Walker A motif; other site 283942002402 ATP binding site [chemical binding]; other site 283942002403 Walker B motif; other site 283942002404 arginine finger; other site 283942002405 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 283942002406 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 283942002407 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 283942002408 peptide binding site [polypeptide binding]; other site 283942002409 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 283942002410 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 283942002411 dimer interface [polypeptide binding]; other site 283942002412 conserved gate region; other site 283942002413 putative PBP binding loops; other site 283942002414 ABC-ATPase subunit interface; other site 283942002415 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 283942002416 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 283942002417 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 283942002418 dimer interface [polypeptide binding]; other site 283942002419 conserved gate region; other site 283942002420 putative PBP binding loops; other site 283942002421 ABC-ATPase subunit interface; other site 283942002422 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 283942002423 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 283942002424 Walker A/P-loop; other site 283942002425 ATP binding site [chemical binding]; other site 283942002426 Q-loop/lid; other site 283942002427 ABC transporter signature motif; other site 283942002428 Walker B; other site 283942002429 D-loop; other site 283942002430 H-loop/switch region; other site 283942002431 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 283942002432 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 283942002433 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 283942002434 Walker A/P-loop; other site 283942002435 ATP binding site [chemical binding]; other site 283942002436 Q-loop/lid; other site 283942002437 ABC transporter signature motif; other site 283942002438 Walker B; other site 283942002439 D-loop; other site 283942002440 H-loop/switch region; other site 283942002441 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 283942002442 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 283942002443 Na binding site [ion binding]; other site 283942002444 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 283942002445 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 283942002446 hypothetical protein; Provisional; Region: PRK10279 283942002447 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 283942002448 active site 283942002449 nucleophile elbow; other site 283942002450 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 283942002451 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 283942002452 recombinase A; Provisional; Region: recA; PRK09354 283942002453 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 283942002454 hexamer interface [polypeptide binding]; other site 283942002455 Walker A motif; other site 283942002456 ATP binding site [chemical binding]; other site 283942002457 Walker B motif; other site 283942002458 Competence-damaged protein; Region: CinA; pfam02464 283942002459 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 283942002460 MutS domain I; Region: MutS_I; pfam01624 283942002461 MutS domain II; Region: MutS_II; pfam05188 283942002462 MutS domain III; Region: MutS_III; pfam05192 283942002463 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 283942002464 Walker A/P-loop; other site 283942002465 ATP binding site [chemical binding]; other site 283942002466 Q-loop/lid; other site 283942002467 ABC transporter signature motif; other site 283942002468 Walker B; other site 283942002469 D-loop; other site 283942002470 H-loop/switch region; other site 283942002471 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 283942002472 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 283942002473 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 283942002474 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 283942002475 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 283942002476 DNA binding residues [nucleotide binding] 283942002477 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 283942002478 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 283942002479 Peptidase family M23; Region: Peptidase_M23; pfam01551 283942002480 Predicted membrane protein [Function unknown]; Region: COG1238 283942002481 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 283942002482 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 283942002483 S-adenosylmethionine binding site [chemical binding]; other site 283942002484 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 283942002485 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 283942002486 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 283942002487 Permutation of conserved domain; other site 283942002488 active site 283942002489 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 283942002490 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 283942002491 homotrimer interaction site [polypeptide binding]; other site 283942002492 zinc binding site [ion binding]; other site 283942002493 CDP-binding sites; other site 283942002494 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 283942002495 substrate binding site; other site 283942002496 dimer interface; other site 283942002497 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 283942002498 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 283942002499 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 283942002500 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 283942002501 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 283942002502 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 283942002503 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 283942002504 PAS domain; Region: PAS_9; pfam13426 283942002505 putative active site [active] 283942002506 heme pocket [chemical binding]; other site 283942002507 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942002508 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942002509 metal binding site [ion binding]; metal-binding site 283942002510 active site 283942002511 I-site; other site 283942002512 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 283942002513 hypothetical protein; Provisional; Region: PRK11019 283942002514 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 283942002515 MAPEG family; Region: MAPEG; pfam01124 283942002516 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 283942002517 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 283942002518 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 283942002519 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 283942002520 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 283942002521 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 283942002522 Uncharacterized conserved protein [Function unknown]; Region: COG1262 283942002523 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 283942002524 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 283942002525 Cu(I) binding site [ion binding]; other site 283942002526 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 283942002527 ThiC-associated domain; Region: ThiC-associated; pfam13667 283942002528 ThiC family; Region: ThiC; pfam01964 283942002529 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 283942002530 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 283942002531 dimer interface [polypeptide binding]; other site 283942002532 substrate binding site [chemical binding]; other site 283942002533 ATP binding site [chemical binding]; other site 283942002534 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 283942002535 thiamine phosphate binding site [chemical binding]; other site 283942002536 active site 283942002537 pyrophosphate binding site [ion binding]; other site 283942002538 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 283942002539 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 283942002540 ATP binding site [chemical binding]; other site 283942002541 substrate interface [chemical binding]; other site 283942002542 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 283942002543 thiS-thiF/thiG interaction site; other site 283942002544 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 283942002545 ThiS interaction site; other site 283942002546 putative active site [active] 283942002547 tetramer interface [polypeptide binding]; other site 283942002548 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 283942002549 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 283942002550 FeS/SAM binding site; other site 283942002551 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 283942002552 enolase; Provisional; Region: eno; PRK00077 283942002553 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 283942002554 dimer interface [polypeptide binding]; other site 283942002555 metal binding site [ion binding]; metal-binding site 283942002556 substrate binding pocket [chemical binding]; other site 283942002557 CTP synthetase; Validated; Region: pyrG; PRK05380 283942002558 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 283942002559 Catalytic site [active] 283942002560 active site 283942002561 UTP binding site [chemical binding]; other site 283942002562 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 283942002563 active site 283942002564 putative oxyanion hole; other site 283942002565 catalytic triad [active] 283942002566 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 283942002567 RDD family; Region: RDD; pfam06271 283942002568 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 283942002569 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 283942002570 carboxyltransferase (CT) interaction site; other site 283942002571 biotinylation site [posttranslational modification]; other site 283942002572 HlyD family secretion protein; Region: HlyD_3; pfam13437 283942002573 Outer membrane efflux protein; Region: OEP; pfam02321 283942002574 Outer membrane efflux protein; Region: OEP; pfam02321 283942002575 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 283942002576 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 283942002577 S-adenosylmethionine binding site [chemical binding]; other site 283942002578 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 283942002579 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 283942002580 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 283942002581 Coenzyme A binding pocket [chemical binding]; other site 283942002582 similar to TonB-like protein; fragment 283942002583 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 283942002584 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 283942002585 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 283942002586 Trp docking motif [polypeptide binding]; other site 283942002587 putative active site [active] 283942002588 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 283942002589 acetoin reductases; Region: 23BDH; TIGR02415 283942002590 NAD binding site [chemical binding]; other site 283942002591 homotetramer interface [polypeptide binding]; other site 283942002592 homodimer interface [polypeptide binding]; other site 283942002593 active site 283942002594 substrate binding site [chemical binding]; other site 283942002595 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 283942002596 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 283942002597 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 283942002598 N-terminal plug; other site 283942002599 ligand-binding site [chemical binding]; other site 283942002600 putative alcohol dehydrogenase; Provisional; Region: PRK09860 283942002601 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 283942002602 dimer interface [polypeptide binding]; other site 283942002603 active site 283942002604 metal binding site [ion binding]; metal-binding site 283942002605 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 283942002606 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 283942002607 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 283942002608 ZIP Zinc transporter; Region: Zip; pfam02535 283942002609 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 283942002610 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 283942002611 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 283942002612 DNA binding residues [nucleotide binding] 283942002613 putative dimer interface [polypeptide binding]; other site 283942002614 putative metal binding residues [ion binding]; other site 283942002615 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 283942002616 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 283942002617 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 283942002618 homodimer interface [polypeptide binding]; other site 283942002619 metal binding site [ion binding]; metal-binding site 283942002620 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 283942002621 homodimer interface [polypeptide binding]; other site 283942002622 active site 283942002623 putative chemical substrate binding site [chemical binding]; other site 283942002624 metal binding site [ion binding]; metal-binding site 283942002625 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 283942002626 HD domain; Region: HD_4; pfam13328 283942002627 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 283942002628 synthetase active site [active] 283942002629 NTP binding site [chemical binding]; other site 283942002630 metal binding site [ion binding]; metal-binding site 283942002631 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 283942002632 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 283942002633 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 283942002634 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 283942002635 S-adenosylmethionine binding site [chemical binding]; other site 283942002636 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 283942002637 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 283942002638 active site 283942002639 hydrophilic channel; other site 283942002640 dimerization interface [polypeptide binding]; other site 283942002641 catalytic residues [active] 283942002642 active site lid [active] 283942002643 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 283942002644 Recombination protein O N terminal; Region: RecO_N; pfam11967 283942002645 Recombination protein O C terminal; Region: RecO_C; pfam02565 283942002646 GTPase Era; Reviewed; Region: era; PRK00089 283942002647 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 283942002648 G1 box; other site 283942002649 GTP/Mg2+ binding site [chemical binding]; other site 283942002650 Switch I region; other site 283942002651 G2 box; other site 283942002652 Switch II region; other site 283942002653 G3 box; other site 283942002654 G4 box; other site 283942002655 G5 box; other site 283942002656 KH domain; Region: KH_2; pfam07650 283942002657 ribonuclease III; Reviewed; Region: rnc; PRK00102 283942002658 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 283942002659 dimerization interface [polypeptide binding]; other site 283942002660 active site 283942002661 metal binding site [ion binding]; metal-binding site 283942002662 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 283942002663 dsRNA binding site [nucleotide binding]; other site 283942002664 signal peptidase I; Provisional; Region: PRK10861 283942002665 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 283942002666 Catalytic site [active] 283942002667 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 283942002668 GTP-binding protein LepA; Provisional; Region: PRK05433 283942002669 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 283942002670 G1 box; other site 283942002671 putative GEF interaction site [polypeptide binding]; other site 283942002672 GTP/Mg2+ binding site [chemical binding]; other site 283942002673 Switch I region; other site 283942002674 G2 box; other site 283942002675 G3 box; other site 283942002676 Switch II region; other site 283942002677 G4 box; other site 283942002678 G5 box; other site 283942002679 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 283942002680 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 283942002681 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 283942002682 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 283942002683 anti-sigma E factor; Provisional; Region: rseB; PRK09455 283942002684 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 283942002685 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 283942002686 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 283942002687 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 283942002688 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 283942002689 DNA binding residues [nucleotide binding] 283942002690 L-aspartate oxidase; Provisional; Region: PRK09077 283942002691 L-aspartate oxidase; Provisional; Region: PRK06175 283942002692 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 283942002693 Uncharacterized conserved protein [Function unknown]; Region: COG2938 283942002694 putative global regulator; Reviewed; Region: PRK09559 283942002695 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 283942002696 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 283942002697 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 283942002698 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 283942002699 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 283942002700 dimer interface [polypeptide binding]; other site 283942002701 putative anticodon binding site; other site 283942002702 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 283942002703 motif 1; other site 283942002704 active site 283942002705 motif 2; other site 283942002706 motif 3; other site 283942002707 peptide chain release factor 2; Validated; Region: prfB; PRK00578 283942002708 This domain is found in peptide chain release factors; Region: PCRF; smart00937 283942002709 RF-1 domain; Region: RF-1; pfam00472 283942002710 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 283942002711 DHH family; Region: DHH; pfam01368 283942002712 DHHA1 domain; Region: DHHA1; pfam02272 283942002713 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 283942002714 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 283942002715 dimerization domain [polypeptide binding]; other site 283942002716 dimer interface [polypeptide binding]; other site 283942002717 catalytic residues [active] 283942002718 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 283942002719 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 283942002720 active site 283942002721 Int/Topo IB signature motif; other site 283942002722 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 283942002723 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 283942002724 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 283942002725 NAD(P) binding site [chemical binding]; other site 283942002726 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 283942002727 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942002728 active site 283942002729 phosphorylation site [posttranslational modification] 283942002730 intermolecular recognition site; other site 283942002731 dimerization interface [polypeptide binding]; other site 283942002732 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 283942002733 binding surface 283942002734 TPR motif; other site 283942002735 Tetratricopeptide repeat; Region: TPR_16; pfam13432 283942002736 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 283942002737 TPR motif; other site 283942002738 Pirin-related protein [General function prediction only]; Region: COG1741 283942002739 Pirin; Region: Pirin; pfam02678 283942002740 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 283942002741 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 283942002742 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 283942002743 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 283942002744 putative dimer interface [polypeptide binding]; other site 283942002745 N-terminal domain interface [polypeptide binding]; other site 283942002746 putative substrate binding pocket (H-site) [chemical binding]; other site 283942002747 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 283942002748 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 283942002749 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 283942002750 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 283942002751 active site 283942002752 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 283942002753 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 283942002754 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 283942002755 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 283942002756 trimer interface [polypeptide binding]; other site 283942002757 active site 283942002758 UDP-GlcNAc binding site [chemical binding]; other site 283942002759 lipid binding site [chemical binding]; lipid-binding site 283942002760 periplasmic chaperone; Provisional; Region: PRK10780 283942002761 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 283942002762 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 283942002763 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 283942002764 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 283942002765 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 283942002766 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 283942002767 Surface antigen; Region: Bac_surface_Ag; pfam01103 283942002768 zinc metallopeptidase RseP; Provisional; Region: PRK10779 283942002769 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 283942002770 active site 283942002771 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 283942002772 protein binding site [polypeptide binding]; other site 283942002773 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 283942002774 protein binding site [polypeptide binding]; other site 283942002775 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 283942002776 putative substrate binding region [chemical binding]; other site 283942002777 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 283942002778 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 283942002779 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 283942002780 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 283942002781 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 283942002782 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 283942002783 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 283942002784 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 283942002785 catalytic residue [active] 283942002786 putative FPP diphosphate binding site; other site 283942002787 putative FPP binding hydrophobic cleft; other site 283942002788 dimer interface [polypeptide binding]; other site 283942002789 putative IPP diphosphate binding site; other site 283942002790 ribosome recycling factor; Reviewed; Region: frr; PRK00083 283942002791 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 283942002792 hinge region; other site 283942002793 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 283942002794 putative nucleotide binding site [chemical binding]; other site 283942002795 uridine monophosphate binding site [chemical binding]; other site 283942002796 homohexameric interface [polypeptide binding]; other site 283942002797 elongation factor Ts; Provisional; Region: tsf; PRK09377 283942002798 UBA/TS-N domain; Region: UBA; pfam00627 283942002799 Elongation factor TS; Region: EF_TS; pfam00889 283942002800 Elongation factor TS; Region: EF_TS; pfam00889 283942002801 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 283942002802 rRNA interaction site [nucleotide binding]; other site 283942002803 S8 interaction site; other site 283942002804 putative laminin-1 binding site; other site 283942002805 methionine aminopeptidase; Provisional; Region: PRK08671 283942002806 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 283942002807 active site 283942002808 PII uridylyl-transferase; Provisional; Region: PRK05007 283942002809 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 283942002810 metal binding triad; other site 283942002811 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 283942002812 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 283942002813 Zn2+ binding site [ion binding]; other site 283942002814 Mg2+ binding site [ion binding]; other site 283942002815 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 283942002816 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 283942002817 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 283942002818 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 283942002819 trimer interface [polypeptide binding]; other site 283942002820 active site 283942002821 substrate binding site [chemical binding]; other site 283942002822 CoA binding site [chemical binding]; other site 283942002823 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 283942002824 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 283942002825 probable active site [active] 283942002826 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 283942002827 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 283942002828 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 283942002829 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 283942002830 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 283942002831 Coenzyme A binding pocket [chemical binding]; other site 283942002832 Syd protein (SUKH-2); Region: Syd; pfam07348 283942002833 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 283942002834 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 283942002835 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 283942002836 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 283942002837 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 283942002838 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 283942002839 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942002840 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942002841 metal binding site [ion binding]; metal-binding site 283942002842 active site 283942002843 I-site; other site 283942002844 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 283942002845 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 283942002846 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 283942002847 isocitrate dehydrogenase; Provisional; Region: PRK08997 283942002848 tartrate dehydrogenase; Region: TTC; TIGR02089 283942002849 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 283942002850 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 283942002851 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 283942002852 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 283942002853 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 283942002854 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 283942002855 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 283942002856 dimerization interface [polypeptide binding]; other site 283942002857 substrate binding pocket [chemical binding]; other site 283942002858 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 283942002859 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 283942002860 NAD(P) binding site [chemical binding]; other site 283942002861 active site 283942002862 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 283942002863 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 283942002864 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 283942002865 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 283942002866 substrate binding site [chemical binding]; other site 283942002867 oxyanion hole (OAH) forming residues; other site 283942002868 trimer interface [polypeptide binding]; other site 283942002869 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 283942002870 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 283942002871 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 283942002872 active site 283942002873 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 283942002874 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 283942002875 tetrameric interface [polypeptide binding]; other site 283942002876 NAD binding site [chemical binding]; other site 283942002877 catalytic residues [active] 283942002878 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 283942002879 EamA-like transporter family; Region: EamA; pfam00892 283942002880 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 283942002881 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 283942002882 dimer interface [polypeptide binding]; other site 283942002883 active site 283942002884 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 283942002885 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 283942002886 DNA binding residues [nucleotide binding] 283942002887 putative dimer interface [polypeptide binding]; other site 283942002888 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 283942002889 isovaleryl-CoA dehydrogenase; Region: PLN02519 283942002890 substrate binding site [chemical binding]; other site 283942002891 FAD binding site [chemical binding]; other site 283942002892 catalytic base [active] 283942002893 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 283942002894 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 283942002895 enoyl-CoA hydratase; Provisional; Region: PRK05995 283942002896 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 283942002897 substrate binding site [chemical binding]; other site 283942002898 oxyanion hole (OAH) forming residues; other site 283942002899 trimer interface [polypeptide binding]; other site 283942002900 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 283942002901 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 283942002902 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 283942002903 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 283942002904 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 283942002905 carboxyltransferase (CT) interaction site; other site 283942002906 biotinylation site [posttranslational modification]; other site 283942002907 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 283942002908 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 283942002909 active site 283942002910 catalytic residues [active] 283942002911 metal binding site [ion binding]; metal-binding site 283942002912 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 283942002913 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 283942002914 acyl-activating enzyme (AAE) consensus motif; other site 283942002915 putative AMP binding site [chemical binding]; other site 283942002916 putative active site [active] 283942002917 putative CoA binding site [chemical binding]; other site 283942002918 CHASE domain; Region: CHASE; cl01369 283942002919 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942002920 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942002921 metal binding site [ion binding]; metal-binding site 283942002922 active site 283942002923 I-site; other site 283942002924 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 283942002925 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 283942002926 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 283942002927 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 283942002928 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 283942002929 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 283942002930 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 283942002931 homodimer interaction site [polypeptide binding]; other site 283942002932 cofactor binding site; other site 283942002933 prolyl-tRNA synthetase; Provisional; Region: PRK09194 283942002934 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 283942002935 dimer interface [polypeptide binding]; other site 283942002936 motif 1; other site 283942002937 active site 283942002938 motif 2; other site 283942002939 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 283942002940 putative deacylase active site [active] 283942002941 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 283942002942 active site 283942002943 motif 3; other site 283942002944 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 283942002945 anticodon binding site; other site 283942002946 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 283942002947 active site 283942002948 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 283942002949 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 283942002950 catalytic loop [active] 283942002951 iron binding site [ion binding]; other site 283942002952 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 283942002953 ATP-NAD kinase; Region: NAD_kinase; pfam01513 283942002954 Predicted small secreted protein [Function unknown]; Region: COG5510 283942002955 Protein of unknown function, DUF462; Region: DUF462; pfam04315 283942002956 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 283942002957 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 283942002958 Tetramer interface [polypeptide binding]; other site 283942002959 active site 283942002960 FMN-binding site [chemical binding]; other site 283942002961 HemK family putative methylases; Region: hemK_fam; TIGR00536 283942002962 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 283942002963 S-adenosylmethionine binding site [chemical binding]; other site 283942002964 hypothetical protein; Provisional; Region: PRK04946 283942002965 Smr domain; Region: Smr; pfam01713 283942002966 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 283942002967 catalytic core [active] 283942002968 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 283942002969 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 283942002970 putative coenzyme Q binding site [chemical binding]; other site 283942002971 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 283942002972 SmpB-tmRNA interface; other site 283942002973 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 283942002974 binding surface 283942002975 TPR motif; other site 283942002976 TPR repeat; Region: TPR_11; pfam13414 283942002977 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 283942002978 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 283942002979 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 283942002980 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 283942002981 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 283942002982 Type II/IV secretion system protein; Region: T2SE; pfam00437 283942002983 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 283942002984 ATP binding site [chemical binding]; other site 283942002985 Walker A motif; other site 283942002986 hexamer interface [polypeptide binding]; other site 283942002987 Walker B motif; other site 283942002988 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 283942002989 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 283942002990 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 283942002991 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 283942002992 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 283942002993 Putative addiction module component; Region: Unstab_antitox; pfam09720 283942002994 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 283942002995 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 283942002996 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 283942002997 Ligand Binding Site [chemical binding]; other site 283942002998 beta-hexosaminidase; Provisional; Region: PRK05337 283942002999 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 283942003000 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 283942003001 C-terminal peptidase (prc); Region: prc; TIGR00225 283942003002 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 283942003003 protein binding site [polypeptide binding]; other site 283942003004 C-terminal processing peptidase-like; serine protease family S41; Region: Peptidase_S41_CPP_like; cd07561 283942003005 Catalytic dyad [active] 283942003006 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 283942003007 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 283942003008 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 283942003009 active site 283942003010 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 283942003011 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 283942003012 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 283942003013 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 283942003014 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 283942003015 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 283942003016 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 283942003017 Protein of unknown function (DUF819); Region: DUF819; cl02317 283942003018 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 283942003019 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 283942003020 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942003021 active site 283942003022 phosphorylation site [posttranslational modification] 283942003023 intermolecular recognition site; other site 283942003024 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 283942003025 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 283942003026 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 283942003027 S-adenosylmethionine binding site [chemical binding]; other site 283942003028 peptide chain release factor 1; Validated; Region: prfA; PRK00591 283942003029 This domain is found in peptide chain release factors; Region: PCRF; smart00937 283942003030 RF-1 domain; Region: RF-1; pfam00472 283942003031 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 283942003032 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 283942003033 tRNA; other site 283942003034 putative tRNA binding site [nucleotide binding]; other site 283942003035 putative NADP binding site [chemical binding]; other site 283942003036 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 283942003037 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 283942003038 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 283942003039 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 283942003040 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 283942003041 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 283942003042 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 283942003043 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 283942003044 active site 283942003045 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 283942003046 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 283942003047 5S rRNA interface [nucleotide binding]; other site 283942003048 CTC domain interface [polypeptide binding]; other site 283942003049 L16 interface [polypeptide binding]; other site 283942003050 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 283942003051 putative active site [active] 283942003052 catalytic residue [active] 283942003053 GTP-binding protein YchF; Reviewed; Region: PRK09601 283942003054 YchF GTPase; Region: YchF; cd01900 283942003055 G1 box; other site 283942003056 GTP/Mg2+ binding site [chemical binding]; other site 283942003057 Switch I region; other site 283942003058 G2 box; other site 283942003059 Switch II region; other site 283942003060 G3 box; other site 283942003061 G4 box; other site 283942003062 G5 box; other site 283942003063 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 283942003064 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 283942003065 apolar tunnel; other site 283942003066 heme binding site [chemical binding]; other site 283942003067 dimerization interface [polypeptide binding]; other site 283942003068 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 283942003069 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 283942003070 dimerization interface [polypeptide binding]; other site 283942003071 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942003072 metal binding site [ion binding]; metal-binding site 283942003073 active site 283942003074 I-site; other site 283942003075 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 283942003076 fumarate hydratase; Reviewed; Region: fumC; PRK00485 283942003077 Class II fumarases; Region: Fumarase_classII; cd01362 283942003078 active site 283942003079 tetramer interface [polypeptide binding]; other site 283942003080 C factor cell-cell signaling protein; Provisional; Region: PRK09009 283942003081 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 283942003082 NADP binding site [chemical binding]; other site 283942003083 homodimer interface [polypeptide binding]; other site 283942003084 active site 283942003085 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 283942003086 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 283942003087 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 283942003088 EamA-like transporter family; Region: EamA; pfam00892 283942003089 EamA-like transporter family; Region: EamA; pfam00892 283942003090 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 283942003091 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 283942003092 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 283942003093 FeS/SAM binding site; other site 283942003094 TRAM domain; Region: TRAM; pfam01938 283942003095 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 283942003096 PhoH-like protein; Region: PhoH; pfam02562 283942003097 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 283942003098 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 283942003099 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 283942003100 Transporter associated domain; Region: CorC_HlyC; smart01091 283942003101 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 283942003102 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 283942003103 putative active site [active] 283942003104 catalytic triad [active] 283942003105 putative dimer interface [polypeptide binding]; other site 283942003106 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 283942003107 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 283942003108 HIGH motif; other site 283942003109 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 283942003110 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 283942003111 active site 283942003112 KMSKS motif; other site 283942003113 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 283942003114 tRNA binding surface [nucleotide binding]; other site 283942003115 Lipopolysaccharide-assembly; Region: LptE; cl01125 283942003116 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 283942003117 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 283942003118 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 283942003119 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 283942003120 active site 283942003121 (T/H)XGH motif; other site 283942003122 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 283942003123 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 283942003124 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 283942003125 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 283942003126 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 283942003127 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 283942003128 Transglycosylase SLT domain; Region: SLT_2; pfam13406 283942003129 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 283942003130 N-acetyl-D-glucosamine binding site [chemical binding]; other site 283942003131 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 283942003132 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 283942003133 Sporulation related domain; Region: SPOR; pfam05036 283942003134 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 283942003135 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 283942003136 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 283942003137 hypothetical protein; Provisional; Region: PRK04998 283942003138 lipoate-protein ligase B; Provisional; Region: PRK14342 283942003139 lipoyl synthase; Provisional; Region: PRK05481 283942003140 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 283942003141 FeS/SAM binding site; other site 283942003142 MAPEG family; Region: MAPEG; cl09190 283942003143 lipoprotein NlpI; Provisional; Region: PRK11189 283942003144 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 283942003145 binding surface 283942003146 TPR motif; other site 283942003147 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 283942003148 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 283942003149 RNase E interface [polypeptide binding]; other site 283942003150 trimer interface [polypeptide binding]; other site 283942003151 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 283942003152 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 283942003153 RNase E interface [polypeptide binding]; other site 283942003154 trimer interface [polypeptide binding]; other site 283942003155 active site 283942003156 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; cl17245 283942003157 nucleic acid binding region [nucleotide binding]; other site 283942003158 G-X-X-G motif; other site 283942003159 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 283942003160 RNA binding site [nucleotide binding]; other site 283942003161 domain interface; other site 283942003162 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 283942003163 16S/18S rRNA binding site [nucleotide binding]; other site 283942003164 S13e-L30e interaction site [polypeptide binding]; other site 283942003165 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 283942003166 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 283942003167 RNA binding site [nucleotide binding]; other site 283942003168 active site 283942003169 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 283942003170 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 283942003171 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 283942003172 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 283942003173 translation initiation factor IF-2; Region: IF-2; TIGR00487 283942003174 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 283942003175 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 283942003176 G1 box; other site 283942003177 putative GEF interaction site [polypeptide binding]; other site 283942003178 GTP/Mg2+ binding site [chemical binding]; other site 283942003179 Switch I region; other site 283942003180 G2 box; other site 283942003181 G3 box; other site 283942003182 Switch II region; other site 283942003183 G4 box; other site 283942003184 G5 box; other site 283942003185 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 283942003186 Translation-initiation factor 2; Region: IF-2; pfam11987 283942003187 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 283942003188 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 283942003189 NusA N-terminal domain; Region: NusA_N; pfam08529 283942003190 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 283942003191 RNA binding site [nucleotide binding]; other site 283942003192 homodimer interface [polypeptide binding]; other site 283942003193 NusA-like KH domain; Region: KH_5; pfam13184 283942003194 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 283942003195 G-X-X-G motif; other site 283942003196 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 283942003197 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 283942003198 ribosome maturation protein RimP; Reviewed; Region: PRK00092 283942003199 Sm and related proteins; Region: Sm_like; cl00259 283942003200 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 283942003201 putative oligomer interface [polypeptide binding]; other site 283942003202 putative RNA binding site [nucleotide binding]; other site 283942003203 Preprotein translocase SecG subunit; Region: SecG; pfam03840 283942003204 triosephosphate isomerase; Provisional; Region: PRK14567 283942003205 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 283942003206 substrate binding site [chemical binding]; other site 283942003207 dimer interface [polypeptide binding]; other site 283942003208 catalytic triad [active] 283942003209 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 283942003210 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 283942003211 active site 283942003212 substrate binding site [chemical binding]; other site 283942003213 metal binding site [ion binding]; metal-binding site 283942003214 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 283942003215 dihydropteroate synthase; Region: DHPS; TIGR01496 283942003216 substrate binding pocket [chemical binding]; other site 283942003217 dimer interface [polypeptide binding]; other site 283942003218 inhibitor binding site; inhibition site 283942003219 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 283942003220 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 283942003221 Walker A motif; other site 283942003222 ATP binding site [chemical binding]; other site 283942003223 Walker B motif; other site 283942003224 arginine finger; other site 283942003225 Peptidase family M41; Region: Peptidase_M41; pfam01434 283942003226 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 283942003227 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 283942003228 S-adenosylmethionine binding site [chemical binding]; other site 283942003229 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 283942003230 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 283942003231 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 283942003232 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 283942003233 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 283942003234 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 283942003235 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 283942003236 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 283942003237 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 283942003238 ATP-grasp domain; Region: ATP-grasp_4; cl17255 283942003239 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 283942003240 IMP binding site; other site 283942003241 dimer interface [polypeptide binding]; other site 283942003242 interdomain contacts; other site 283942003243 partial ornithine binding site; other site 283942003244 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 283942003245 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 283942003246 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 283942003247 catalytic site [active] 283942003248 subunit interface [polypeptide binding]; other site 283942003249 dihydrodipicolinate reductase; Provisional; Region: PRK00048 283942003250 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 283942003251 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 283942003252 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 283942003253 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 283942003254 Peptidase family M48; Region: Peptidase_M48; pfam01435 283942003255 chaperone protein DnaJ; Provisional; Region: PRK10767 283942003256 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 283942003257 HSP70 interaction site [polypeptide binding]; other site 283942003258 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 283942003259 substrate binding site [polypeptide binding]; other site 283942003260 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 283942003261 Zn binding sites [ion binding]; other site 283942003262 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 283942003263 dimer interface [polypeptide binding]; other site 283942003264 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 283942003265 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 283942003266 nucleotide binding site [chemical binding]; other site 283942003267 GrpE; Region: GrpE; pfam01025 283942003268 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 283942003269 dimer interface [polypeptide binding]; other site 283942003270 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 283942003271 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 283942003272 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 283942003273 recombination and repair protein; Provisional; Region: PRK10869 283942003274 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 283942003275 Walker A/P-loop; other site 283942003276 ATP binding site [chemical binding]; other site 283942003277 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 283942003278 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 283942003279 ABC transporter signature motif; other site 283942003280 Walker B; other site 283942003281 D-loop; other site 283942003282 H-loop/switch region; other site 283942003283 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 283942003284 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 283942003285 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 283942003286 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 283942003287 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 283942003288 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 283942003289 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 283942003290 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 283942003291 PAS fold; Region: PAS_3; pfam08447 283942003292 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 283942003293 PAS domain; Region: PAS_9; pfam13426 283942003294 putative active site [active] 283942003295 heme pocket [chemical binding]; other site 283942003296 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942003297 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942003298 metal binding site [ion binding]; metal-binding site 283942003299 active site 283942003300 I-site; other site 283942003301 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 283942003302 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 283942003303 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 283942003304 substrate binding site [chemical binding]; other site 283942003305 oxyanion hole (OAH) forming residues; other site 283942003306 trimer interface [polypeptide binding]; other site 283942003307 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 283942003308 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 283942003309 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 283942003310 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 283942003311 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 283942003312 dimer interface [polypeptide binding]; other site 283942003313 active site 283942003314 MoxR-like ATPases [General function prediction only]; Region: COG0714 283942003315 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 283942003316 Walker A motif; other site 283942003317 ATP binding site [chemical binding]; other site 283942003318 Walker B motif; other site 283942003319 arginine finger; other site 283942003320 Protein of unknown function DUF58; Region: DUF58; pfam01882 283942003321 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 283942003322 Aerotolerance regulator N-terminal; Region: BatA; cl06567 283942003323 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 283942003324 metal ion-dependent adhesion site (MIDAS); other site 283942003325 von Willebrand factor type A domain; Region: VWA_2; pfam13519 283942003326 metal ion-dependent adhesion site (MIDAS); other site 283942003327 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 283942003328 Tetratricopeptide repeat; Region: TPR_16; pfam13432 283942003329 binding surface 283942003330 TPR motif; other site 283942003331 Oxygen tolerance; Region: BatD; pfam13584 283942003332 periplasmic folding chaperone; Provisional; Region: PRK10788 283942003333 SurA N-terminal domain; Region: SurA_N_3; cl07813 283942003334 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 283942003335 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 283942003336 IHF dimer interface [polypeptide binding]; other site 283942003337 IHF - DNA interface [nucleotide binding]; other site 283942003338 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 283942003339 Found in ATP-dependent protease La (LON); Region: LON; smart00464 283942003340 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 283942003341 Walker A motif; other site 283942003342 ATP binding site [chemical binding]; other site 283942003343 Walker B motif; other site 283942003344 arginine finger; other site 283942003345 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 283942003346 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 283942003347 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 283942003348 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 283942003349 Walker A motif; other site 283942003350 ATP binding site [chemical binding]; other site 283942003351 Walker B motif; other site 283942003352 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 283942003353 Clp protease; Region: CLP_protease; pfam00574 283942003354 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 283942003355 oligomer interface [polypeptide binding]; other site 283942003356 active site residues [active] 283942003357 trigger factor; Provisional; Region: tig; PRK01490 283942003358 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 283942003359 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 283942003360 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 283942003361 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 283942003362 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 283942003363 homodimer interface [polypeptide binding]; other site 283942003364 NADP binding site [chemical binding]; other site 283942003365 substrate binding site [chemical binding]; other site 283942003366 TadE-like protein; Region: TadE; pfam07811 283942003367 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 283942003368 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 283942003369 active site 283942003370 interdomain interaction site; other site 283942003371 putative metal-binding site [ion binding]; other site 283942003372 nucleotide binding site [chemical binding]; other site 283942003373 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 283942003374 domain I; other site 283942003375 DNA binding groove [nucleotide binding] 283942003376 phosphate binding site [ion binding]; other site 283942003377 domain II; other site 283942003378 domain III; other site 283942003379 nucleotide binding site [chemical binding]; other site 283942003380 catalytic site [active] 283942003381 domain IV; other site 283942003382 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 283942003383 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 283942003384 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 283942003385 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 283942003386 succinylarginine dihydrolase; Provisional; Region: PRK13281 283942003387 amidophosphoribosyltransferase; Provisional; Region: PRK09246 283942003388 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 283942003389 active site 283942003390 tetramer interface [polypeptide binding]; other site 283942003391 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 283942003392 active site 283942003393 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 283942003394 Colicin V production protein; Region: Colicin_V; cl00567 283942003395 Sporulation related domain; Region: SPOR; pfam05036 283942003396 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 283942003397 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 283942003398 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 283942003399 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 283942003400 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 283942003401 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 283942003402 dimerization interface 3.5A [polypeptide binding]; other site 283942003403 active site 283942003404 FimV N-terminal domain; Region: FimV_core; TIGR03505 283942003405 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 283942003406 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 283942003407 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 283942003408 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 283942003409 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 283942003410 ligand binding site [chemical binding]; other site 283942003411 NAD binding site [chemical binding]; other site 283942003412 catalytic site [active] 283942003413 homodimer interface [polypeptide binding]; other site 283942003414 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 283942003415 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 283942003416 dimer interface [polypeptide binding]; other site 283942003417 active site 283942003418 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 283942003419 Uncharacterized conserved protein [Function unknown]; Region: COG4121 283942003420 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 283942003421 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 283942003422 YfcL protein; Region: YfcL; pfam08891 283942003423 flavodoxin FldB; Provisional; Region: PRK12359 283942003424 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 283942003425 active site 283942003426 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 283942003427 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 283942003428 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 283942003429 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 283942003430 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 283942003431 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 283942003432 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 283942003433 PA_M28_1_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 1. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_1; cd04820 283942003434 PA/protease or protease-like domain interface [polypeptide binding]; other site 283942003435 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_2; cd05661 283942003436 Peptidase family M28; Region: Peptidase_M28; pfam04389 283942003437 metal binding site [ion binding]; metal-binding site 283942003438 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 283942003439 putative acyl-acceptor binding pocket; other site 283942003440 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 283942003441 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 283942003442 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 283942003443 putative active site [active] 283942003444 putative metal binding site [ion binding]; other site 283942003445 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 283942003446 substrate binding site [chemical binding]; other site 283942003447 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 283942003448 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 283942003449 active site 283942003450 HIGH motif; other site 283942003451 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 283942003452 KMSKS motif; other site 283942003453 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 283942003454 tRNA binding surface [nucleotide binding]; other site 283942003455 anticodon binding site; other site 283942003456 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 283942003457 interface (dimer of trimers) [polypeptide binding]; other site 283942003458 Substrate-binding/catalytic site; other site 283942003459 Zn-binding sites [ion binding]; other site 283942003460 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 283942003461 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 283942003462 active site 283942003463 dinuclear metal binding site [ion binding]; other site 283942003464 dimerization interface [polypeptide binding]; other site 283942003465 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 283942003466 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 283942003467 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 283942003468 putative inner membrane peptidase; Provisional; Region: PRK11778 283942003469 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 283942003470 tandem repeat interface [polypeptide binding]; other site 283942003471 oligomer interface [polypeptide binding]; other site 283942003472 active site residues [active] 283942003473 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 283942003474 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 283942003475 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 283942003476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 283942003477 NAD(P) binding site [chemical binding]; other site 283942003478 active site 283942003479 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 283942003480 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 283942003481 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 283942003482 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 283942003483 catalytic residue [active] 283942003484 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 283942003485 active site residue [active] 283942003486 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 283942003487 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 283942003488 ApbE family; Region: ApbE; pfam02424 283942003489 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 283942003490 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 283942003491 catalytic loop [active] 283942003492 iron binding site [ion binding]; other site 283942003493 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 283942003494 FAD binding pocket [chemical binding]; other site 283942003495 FAD binding motif [chemical binding]; other site 283942003496 phosphate binding motif [ion binding]; other site 283942003497 beta-alpha-beta structure motif; other site 283942003498 NAD binding pocket [chemical binding]; other site 283942003499 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 283942003500 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 283942003501 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 283942003502 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 283942003503 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 283942003504 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 283942003505 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 283942003506 E3 interaction surface; other site 283942003507 lipoyl attachment site [posttranslational modification]; other site 283942003508 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 283942003509 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 283942003510 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 283942003511 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 283942003512 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 283942003513 BolA-like protein; Region: BolA; cl00386 283942003514 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 283942003515 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 283942003516 Protein of unknown function (DUF330); Region: DUF330; pfam03886 283942003517 paraquat-inducible protein B; Provisional; Region: PRK10807 283942003518 mce related protein; Region: MCE; pfam02470 283942003519 mce related protein; Region: MCE; pfam02470 283942003520 Paraquat-inducible protein A; Region: PqiA; pfam04403 283942003521 Paraquat-inducible protein A; Region: PqiA; pfam04403 283942003522 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 283942003523 TrkA-N domain; Region: TrkA_N; pfam02254 283942003524 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 283942003525 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 283942003526 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 283942003527 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 283942003528 dimer interface [polypeptide binding]; other site 283942003529 conserved gate region; other site 283942003530 putative PBP binding loops; other site 283942003531 ABC-ATPase subunit interface; other site 283942003532 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 283942003533 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 283942003534 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 283942003535 Walker A/P-loop; other site 283942003536 ATP binding site [chemical binding]; other site 283942003537 Q-loop/lid; other site 283942003538 ABC transporter signature motif; other site 283942003539 Walker B; other site 283942003540 D-loop; other site 283942003541 H-loop/switch region; other site 283942003542 TOBE domain; Region: TOBE_2; pfam08402 283942003543 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 283942003544 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 283942003545 Cl binding site [ion binding]; other site 283942003546 oligomer interface [polypeptide binding]; other site 283942003547 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 283942003548 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 283942003549 acyl-activating enzyme (AAE) consensus motif; other site 283942003550 AMP binding site [chemical binding]; other site 283942003551 active site 283942003552 CoA binding site [chemical binding]; other site 283942003553 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 283942003554 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 283942003555 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 283942003556 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 283942003557 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 283942003558 heme binding site [chemical binding]; other site 283942003559 ferroxidase pore; other site 283942003560 ferroxidase diiron center [ion binding]; other site 283942003561 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 283942003562 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 283942003563 heme binding site [chemical binding]; other site 283942003564 ferroxidase pore; other site 283942003565 ferroxidase diiron center [ion binding]; other site 283942003566 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 283942003567 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 283942003568 HAMP domain; Region: HAMP; pfam00672 283942003569 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 283942003570 dimer interface [polypeptide binding]; other site 283942003571 putative CheW interface [polypeptide binding]; other site 283942003572 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 283942003573 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 283942003574 catalytic triad [active] 283942003575 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 283942003576 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 283942003577 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 283942003578 putative metal binding site [ion binding]; other site 283942003579 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 283942003580 Interdomain contacts; other site 283942003581 Cytokine receptor motif; other site 283942003582 PilZ domain; Region: PilZ; pfam07238 283942003583 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 283942003584 putative NAD(P) binding site [chemical binding]; other site 283942003585 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 283942003586 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 283942003587 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 283942003588 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 283942003589 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 283942003590 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 283942003591 active site 283942003592 dimer interface [polypeptide binding]; other site 283942003593 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 283942003594 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 283942003595 active site 283942003596 FMN binding site [chemical binding]; other site 283942003597 substrate binding site [chemical binding]; other site 283942003598 3Fe-4S cluster binding site [ion binding]; other site 283942003599 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 283942003600 domain interface; other site 283942003601 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 283942003602 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 283942003603 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 283942003604 quinolinate synthetase; Provisional; Region: PRK09375 283942003605 tol-pal system protein YbgF; Provisional; Region: PRK10803 283942003606 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 283942003607 TPR motif; other site 283942003608 binding surface 283942003609 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 283942003610 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 283942003611 ligand binding site [chemical binding]; other site 283942003612 translocation protein TolB; Provisional; Region: tolB; PRK04792 283942003613 TolB amino-terminal domain; Region: TolB_N; pfam04052 283942003614 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 283942003615 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 283942003616 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 283942003617 TolA protein; Region: tolA_full; TIGR02794 283942003618 TolA C-terminal; Region: TolA; pfam06519 283942003619 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 283942003620 TolR protein; Region: tolR; TIGR02801 283942003621 TolQ protein; Region: tolQ; TIGR02796 283942003622 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 283942003623 active site 283942003624 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 283942003625 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 283942003626 Walker A motif; other site 283942003627 ATP binding site [chemical binding]; other site 283942003628 Walker B motif; other site 283942003629 arginine finger; other site 283942003630 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 283942003631 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 283942003632 RuvA N terminal domain; Region: RuvA_N; pfam01330 283942003633 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 283942003634 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 283942003635 active site 283942003636 putative DNA-binding cleft [nucleotide binding]; other site 283942003637 dimer interface [polypeptide binding]; other site 283942003638 hypothetical protein; Validated; Region: PRK00110 283942003639 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 283942003640 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 283942003641 dimer interface [polypeptide binding]; other site 283942003642 anticodon binding site; other site 283942003643 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 283942003644 homodimer interface [polypeptide binding]; other site 283942003645 motif 1; other site 283942003646 active site 283942003647 motif 2; other site 283942003648 GAD domain; Region: GAD; pfam02938 283942003649 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 283942003650 active site 283942003651 motif 3; other site 283942003652 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 283942003653 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 283942003654 substrate binding pocket [chemical binding]; other site 283942003655 membrane-bound complex binding site; other site 283942003656 hinge residues; other site 283942003657 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942003658 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942003659 metal binding site [ion binding]; metal-binding site 283942003660 active site 283942003661 I-site; other site 283942003662 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 283942003663 S-adenosylmethionine binding site [chemical binding]; other site 283942003664 Methyltransferase domain; Region: Methyltransf_23; pfam13489 283942003665 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 283942003666 S-adenosylmethionine binding site [chemical binding]; other site 283942003667 Transcriptional regulator [Transcription]; Region: LysR; COG0583 283942003668 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 283942003669 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 283942003670 dimerization interface [polypeptide binding]; other site 283942003671 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 283942003672 active site 283942003673 tetramer interface; other site 283942003674 Response regulator receiver domain; Region: Response_reg; pfam00072 283942003675 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942003676 active site 283942003677 phosphorylation site [posttranslational modification] 283942003678 intermolecular recognition site; other site 283942003679 dimerization interface [polypeptide binding]; other site 283942003680 VacJ like lipoprotein; Region: VacJ; cl01073 283942003681 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 283942003682 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 283942003683 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 283942003684 TPR motif; other site 283942003685 binding surface 283942003686 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 283942003687 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 283942003688 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 283942003689 catalytic residues [active] 283942003690 central insert; other site 283942003691 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 283942003692 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 283942003693 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 283942003694 heme exporter protein CcmC; Region: ccmC; TIGR01191 283942003695 heme exporter protein CcmB; Region: ccmB; TIGR01190 283942003696 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 283942003697 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 283942003698 Walker A/P-loop; other site 283942003699 ATP binding site [chemical binding]; other site 283942003700 Q-loop/lid; other site 283942003701 ABC transporter signature motif; other site 283942003702 Walker B; other site 283942003703 D-loop; other site 283942003704 H-loop/switch region; other site 283942003705 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 283942003706 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 283942003707 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 283942003708 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 283942003709 putative CheA interaction surface; other site 283942003710 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 283942003711 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 283942003712 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 283942003713 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 283942003714 Magnesium ion binding site [ion binding]; other site 283942003715 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 283942003716 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942003717 active site 283942003718 phosphorylation site [posttranslational modification] 283942003719 intermolecular recognition site; other site 283942003720 dimerization interface [polypeptide binding]; other site 283942003721 CheB methylesterase; Region: CheB_methylest; pfam01339 283942003722 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 283942003723 putative binding surface; other site 283942003724 active site 283942003725 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 283942003726 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 283942003727 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942003728 ATP binding site [chemical binding]; other site 283942003729 Mg2+ binding site [ion binding]; other site 283942003730 G-X-G motif; other site 283942003731 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 283942003732 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 283942003733 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 283942003734 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942003735 active site 283942003736 phosphorylation site [posttranslational modification] 283942003737 intermolecular recognition site; other site 283942003738 dimerization interface [polypeptide binding]; other site 283942003739 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 283942003740 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 283942003741 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 283942003742 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 283942003743 DNA binding residues [nucleotide binding] 283942003744 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 283942003745 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 283942003746 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 283942003747 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 283942003748 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 283942003749 FHIPEP family; Region: FHIPEP; pfam00771 283942003750 hypothetical protein; Provisional; Region: PRK10506 283942003751 hypothetical protein; Provisional; Region: PRK10557 283942003752 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 283942003753 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 283942003754 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 283942003755 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 283942003756 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 283942003757 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 283942003758 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 283942003759 active site 283942003760 HIGH motif; other site 283942003761 nucleotide binding site [chemical binding]; other site 283942003762 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 283942003763 active site 283942003764 KMSKS motif; other site 283942003765 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 283942003766 tRNA binding surface [nucleotide binding]; other site 283942003767 anticodon binding site; other site 283942003768 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 283942003769 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 283942003770 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 283942003771 active site 283942003772 Riboflavin kinase; Region: Flavokinase; smart00904 283942003773 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 283942003774 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 283942003775 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 283942003776 Flagellar protein FliS; Region: FliS; cl00654 283942003777 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 283942003778 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 283942003779 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 283942003780 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 283942003781 FlaG protein; Region: FlaG; pfam03646 283942003782 flagellin; Provisional; Region: PRK12806 283942003783 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 283942003784 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 283942003785 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 283942003786 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 283942003787 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 283942003788 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 283942003789 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 283942003790 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 283942003791 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 283942003792 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 283942003793 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 283942003794 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 283942003795 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 283942003796 Flagellar L-ring protein; Region: FlgH; pfam02107 283942003797 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 283942003798 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 283942003799 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 283942003800 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 283942003801 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 283942003802 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 283942003803 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 283942003804 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 283942003805 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 283942003806 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 283942003807 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 283942003808 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 283942003809 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 283942003810 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 283942003811 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 283942003812 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12625 283942003813 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 283942003814 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 283942003815 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 283942003816 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 283942003817 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 283942003818 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942003819 active site 283942003820 phosphorylation site [posttranslational modification] 283942003821 intermolecular recognition site; other site 283942003822 dimerization interface [polypeptide binding]; other site 283942003823 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 283942003824 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 283942003825 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 283942003826 FlgN protein; Region: FlgN; pfam05130 283942003827 LPP20 lipoprotein; Region: LPP20; cl15824 283942003828 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 283942003829 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 283942003830 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 283942003831 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 283942003832 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 283942003833 Walker A/P-loop; other site 283942003834 ATP binding site [chemical binding]; other site 283942003835 Q-loop/lid; other site 283942003836 ABC transporter signature motif; other site 283942003837 Walker B; other site 283942003838 D-loop; other site 283942003839 H-loop/switch region; other site 283942003840 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 283942003841 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 283942003842 dimer interface [polypeptide binding]; other site 283942003843 conserved gate region; other site 283942003844 putative PBP binding loops; other site 283942003845 ABC-ATPase subunit interface; other site 283942003846 hypothetical protein; Provisional; Region: PRK11622 283942003847 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 283942003848 Uncharacterized conserved protein [Function unknown]; Region: COG0398 283942003849 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 283942003850 mercuric reductase; Validated; Region: PRK06370 283942003851 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 283942003852 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 283942003853 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 283942003854 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 283942003855 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 283942003856 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 283942003857 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 283942003858 Cupin; Region: Cupin_6; pfam12852 283942003859 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 283942003860 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 283942003861 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 283942003862 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 283942003863 Protein of unknown function, DUF547; Region: DUF547; pfam04784 283942003864 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 283942003865 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 283942003866 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 283942003867 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 283942003868 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 283942003869 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 283942003870 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 283942003871 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 283942003872 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 283942003873 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 283942003874 active site 283942003875 catalytic site [active] 283942003876 substrate binding site [chemical binding]; other site 283942003877 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 283942003878 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 283942003879 ligand binding site [chemical binding]; other site 283942003880 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 283942003881 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 283942003882 metal binding triad; other site 283942003883 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 283942003884 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 283942003885 Na binding site [ion binding]; other site 283942003886 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 283942003887 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 283942003888 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 283942003889 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 283942003890 Clp amino terminal domain; Region: Clp_N; pfam02861 283942003891 Clp amino terminal domain; Region: Clp_N; pfam02861 283942003892 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 283942003893 Walker A motif; other site 283942003894 ATP binding site [chemical binding]; other site 283942003895 Walker B motif; other site 283942003896 arginine finger; other site 283942003897 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 283942003898 Walker A motif; other site 283942003899 ATP binding site [chemical binding]; other site 283942003900 Walker B motif; other site 283942003901 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 283942003902 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 283942003903 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 283942003904 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 283942003905 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 283942003906 RNA binding surface [nucleotide binding]; other site 283942003907 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 283942003908 active site 283942003909 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 283942003910 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 283942003911 Nitrogen regulatory protein P-II; Region: P-II; smart00938 283942003912 NAD synthetase; Provisional; Region: PRK13981 283942003913 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 283942003914 multimer interface [polypeptide binding]; other site 283942003915 active site 283942003916 catalytic triad [active] 283942003917 protein interface 1 [polypeptide binding]; other site 283942003918 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 283942003919 homodimer interface [polypeptide binding]; other site 283942003920 NAD binding pocket [chemical binding]; other site 283942003921 ATP binding pocket [chemical binding]; other site 283942003922 Mg binding site [ion binding]; other site 283942003923 active-site loop [active] 283942003924 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 283942003925 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 283942003926 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 283942003927 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 283942003928 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 283942003929 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 283942003930 flagellar motor switch protein; Validated; Region: fliN; PRK08983 283942003931 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 283942003932 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 283942003933 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 283942003934 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 283942003935 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 283942003936 Flagellar FliJ protein; Region: FliJ; pfam02050 283942003937 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 283942003938 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 283942003939 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 283942003940 Walker A motif/ATP binding site; other site 283942003941 Walker B motif; other site 283942003942 flagellar assembly protein H; Validated; Region: fliH; PRK05687 283942003943 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 283942003944 Flagellar assembly protein FliH; Region: FliH; pfam02108 283942003945 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 283942003946 MgtE intracellular N domain; Region: MgtE_N; cl15244 283942003947 FliG C-terminal domain; Region: FliG_C; pfam01706 283942003948 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 283942003949 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 283942003950 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 283942003951 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 283942003952 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 283942003953 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942003954 active site 283942003955 phosphorylation site [posttranslational modification] 283942003956 intermolecular recognition site; other site 283942003957 dimerization interface [polypeptide binding]; other site 283942003958 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 283942003959 Walker A motif; other site 283942003960 ATP binding site [chemical binding]; other site 283942003961 Walker B motif; other site 283942003962 arginine finger; other site 283942003963 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 283942003964 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 283942003965 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 283942003966 putative active site [active] 283942003967 heme pocket [chemical binding]; other site 283942003968 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 283942003969 dimer interface [polypeptide binding]; other site 283942003970 phosphorylation site [posttranslational modification] 283942003971 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942003972 ATP binding site [chemical binding]; other site 283942003973 Mg2+ binding site [ion binding]; other site 283942003974 G-X-G motif; other site 283942003975 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 283942003976 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 283942003977 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 283942003978 Walker A motif; other site 283942003979 ATP binding site [chemical binding]; other site 283942003980 Walker B motif; other site 283942003981 arginine finger; other site 283942003982 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 283942003983 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 283942003984 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 283942003985 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942003986 active site 283942003987 phosphorylation site [posttranslational modification] 283942003988 intermolecular recognition site; other site 283942003989 dimerization interface [polypeptide binding]; other site 283942003990 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 283942003991 DNA binding residues [nucleotide binding] 283942003992 dimerization interface [polypeptide binding]; other site 283942003993 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 283942003994 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 283942003995 active site 283942003996 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 283942003997 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 283942003998 active site 283942003999 phosphorylation site [posttranslational modification] 283942004000 intermolecular recognition site; other site 283942004001 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 283942004002 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 283942004003 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 283942004004 Zn2+ binding site [ion binding]; other site 283942004005 Mg2+ binding site [ion binding]; other site 283942004006 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 283942004007 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 283942004008 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 283942004009 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 283942004010 6-phosphofructokinase; Provisional; Region: PRK03202 283942004011 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 283942004012 active site 283942004013 ADP/pyrophosphate binding site [chemical binding]; other site 283942004014 dimerization interface [polypeptide binding]; other site 283942004015 allosteric effector site; other site 283942004016 fructose-1,6-bisphosphate binding site; other site 283942004017 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 283942004018 agmatinase; Region: agmatinase; TIGR01230 283942004019 putative active site [active] 283942004020 Mn binding site [ion binding]; other site 283942004021 arginine decarboxylase; Provisional; Region: PRK05354 283942004022 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 283942004023 dimer interface [polypeptide binding]; other site 283942004024 active site 283942004025 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 283942004026 catalytic residues [active] 283942004027 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 283942004028 Transposase; Region: HTH_Tnp_1; pfam01527 283942004029 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 283942004030 putative transposase OrfB; Reviewed; Region: PHA02517 283942004031 HTH-like domain; Region: HTH_21; pfam13276 283942004032 Integrase core domain; Region: rve; pfam00665 283942004033 Integrase core domain; Region: rve_3; cl15866 283942004034 Predicted membrane protein [Function unknown]; Region: COG1422 283942004035 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 283942004036 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 283942004037 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 283942004038 metal-binding site [ion binding] 283942004039 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 283942004040 Soluble P-type ATPase [General function prediction only]; Region: COG4087 283942004041 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 283942004042 Nitrogen regulatory protein P-II; Region: P-II; cl00412 283942004043 Nitrogen regulatory protein P-II; Region: P-II; smart00938 283942004044 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 283942004045 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 283942004046 HlyD family secretion protein; Region: HlyD_3; pfam13437 283942004047 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 283942004048 Outer membrane efflux protein; Region: OEP; pfam02321 283942004049 Outer membrane efflux protein; Region: OEP; pfam02321 283942004050 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 283942004051 NADH:ubiquinone oxidoreductase, Na(+)-translocating, F subunit; Region: nqrF; TIGR01941 283942004052 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 283942004053 FAD binding pocket [chemical binding]; other site 283942004054 FAD binding motif [chemical binding]; other site 283942004055 phosphate binding motif [ion binding]; other site 283942004056 beta-alpha-beta structure motif; other site 283942004057 NAD binding pocket [chemical binding]; other site 283942004058 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 283942004059 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 283942004060 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 283942004061 N-terminal plug; other site 283942004062 ligand-binding site [chemical binding]; other site 283942004063 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 283942004064 GSH binding site [chemical binding]; other site 283942004065 catalytic residues [active] 283942004066 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 283942004067 SnoaL-like domain; Region: SnoaL_3; pfam13474 283942004068 Copper resistance protein D; Region: CopD; cl00563 283942004069 CopC domain; Region: CopC; pfam04234 283942004070 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 283942004071 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 283942004072 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 283942004073 Multicopper oxidase; Region: Cu-oxidase; pfam00394 283942004074 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 283942004075 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 283942004076 Protein of unknown function, DUF; Region: DUF411; cl01142 283942004077 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 283942004078 Transposase; Region: DDE_Tnp_ISL3; pfam01610 283942004079 lipoprotein signal peptidase; Provisional; Region: PRK14776 283942004080 Heavy-metal-associated domain; Region: HMA; pfam00403 283942004081 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 283942004082 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 283942004083 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 283942004084 DNA binding residues [nucleotide binding] 283942004085 dimer interface [polypeptide binding]; other site 283942004086 putative metal binding site [ion binding]; other site 283942004087 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 283942004088 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 283942004089 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 283942004090 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 283942004091 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 283942004092 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 283942004093 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 283942004094 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 283942004095 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 283942004096 Transcriptional regulator [Transcription]; Region: LysR; COG0583 283942004097 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 283942004098 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 283942004099 dimerization interface [polypeptide binding]; other site 283942004100 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 283942004101 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 283942004102 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 283942004103 Peptidase family M23; Region: Peptidase_M23; pfam01551 283942004104 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 283942004105 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 283942004106 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 283942004107 Flagellar protein YcgR; Region: YcgR_2; pfam12945 283942004108 PilZ domain; Region: PilZ; pfam07238 283942004109 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 283942004110 Histidine kinase; Region: His_kinase; pfam06580 283942004111 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942004112 ATP binding site [chemical binding]; other site 283942004113 Mg2+ binding site [ion binding]; other site 283942004114 G-X-G motif; other site 283942004115 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 283942004116 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942004117 active site 283942004118 phosphorylation site [posttranslational modification] 283942004119 intermolecular recognition site; other site 283942004120 dimerization interface [polypeptide binding]; other site 283942004121 LytTr DNA-binding domain; Region: LytTR; smart00850 283942004122 pyruvate kinase; Provisional; Region: PRK05826 283942004123 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 283942004124 domain interfaces; other site 283942004125 active site 283942004126 methionine sulfoxide reductase B; Provisional; Region: PRK00222 283942004127 SelR domain; Region: SelR; pfam01641 283942004128 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 283942004129 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 283942004130 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 283942004131 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 283942004132 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 283942004133 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 283942004134 putative active site [active] 283942004135 Zn binding site [ion binding]; other site 283942004136 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 283942004137 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 283942004138 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 283942004139 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 283942004140 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 283942004141 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 283942004142 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 283942004143 GAF domain; Region: GAF_2; pfam13185 283942004144 ProP expression regulator; Provisional; Region: PRK04950 283942004145 ProQ/FINO family; Region: ProQ; pfam04352 283942004146 carboxy-terminal protease; Provisional; Region: PRK11186 283942004147 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 283942004148 protein binding site [polypeptide binding]; other site 283942004149 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 283942004150 Catalytic dyad [active] 283942004151 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 283942004152 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 283942004153 Na2 binding site [ion binding]; other site 283942004154 putative substrate binding site 1 [chemical binding]; other site 283942004155 Na binding site 1 [ion binding]; other site 283942004156 putative substrate binding site 2 [chemical binding]; other site 283942004157 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 283942004158 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 283942004159 aminopeptidase N; Provisional; Region: pepN; PRK14015 283942004160 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 283942004161 active site 283942004162 Zn binding site [ion binding]; other site 283942004163 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 283942004164 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 283942004165 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 283942004166 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 283942004167 quinone interaction residues [chemical binding]; other site 283942004168 active site 283942004169 catalytic residues [active] 283942004170 FMN binding site [chemical binding]; other site 283942004171 substrate binding site [chemical binding]; other site 283942004172 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 283942004173 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 283942004174 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 283942004175 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 283942004176 Methyltransferase domain; Region: Methyltransf_26; pfam13659 283942004177 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 283942004178 GSH binding site [chemical binding]; other site 283942004179 catalytic residues [active] 283942004180 ABC transporter ATPase component; Reviewed; Region: PRK11147 283942004181 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 283942004182 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 283942004183 ABC transporter; Region: ABC_tran_2; pfam12848 283942004184 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 283942004185 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 283942004186 Ribosome modulation factor; Region: RMF; pfam04957 283942004187 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 283942004188 active site 1 [active] 283942004189 dimer interface [polypeptide binding]; other site 283942004190 active site 2 [active] 283942004191 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 283942004192 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 283942004193 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 283942004194 Predicted transcriptional regulator [Transcription]; Region: COG3905 283942004195 LysR family transcriptional regulator; Provisional; Region: PRK14997 283942004196 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 283942004197 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 283942004198 putative effector binding pocket; other site 283942004199 putative dimerization interface [polypeptide binding]; other site 283942004200 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 283942004201 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 283942004202 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 283942004203 HlyD family secretion protein; Region: HlyD_3; pfam13437 283942004204 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 283942004205 Protein export membrane protein; Region: SecD_SecF; cl14618 283942004206 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 283942004207 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 283942004208 dimerization interface [polypeptide binding]; other site 283942004209 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 283942004210 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 283942004211 dimer interface [polypeptide binding]; other site 283942004212 putative CheW interface [polypeptide binding]; other site 283942004213 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 283942004214 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 283942004215 Low-spin heme binding site [chemical binding]; other site 283942004216 Putative water exit pathway; other site 283942004217 Binuclear center (active site) [active] 283942004218 Putative proton exit pathway; other site 283942004219 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 283942004220 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 283942004221 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; cl00282 283942004222 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 283942004223 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 283942004224 Cytochrome c; Region: Cytochrom_C; pfam00034 283942004225 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 283942004226 FixH; Region: FixH; pfam05751 283942004227 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 283942004228 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 283942004229 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 283942004230 metal-binding site [ion binding] 283942004231 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 283942004232 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 283942004233 motif II; other site 283942004234 Family description; Region: DsbD_2; pfam13386 283942004235 universal stress protein UspE; Provisional; Region: PRK11175 283942004236 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 283942004237 Ligand Binding Site [chemical binding]; other site 283942004238 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 283942004239 Ligand Binding Site [chemical binding]; other site 283942004240 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 283942004241 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 283942004242 Ligand Binding Site [chemical binding]; other site 283942004243 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 283942004244 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 283942004245 pseudouridine synthase; Region: TIGR00093 283942004246 active site 283942004247 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 283942004248 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 283942004249 putative lysogenization regulator; Reviewed; Region: PRK00218 283942004250 adenylosuccinate lyase; Provisional; Region: PRK09285 283942004251 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 283942004252 tetramer interface [polypeptide binding]; other site 283942004253 active site 283942004254 Cupin superfamily protein; Region: Cupin_4; pfam08007 283942004255 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 283942004256 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 283942004257 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 283942004258 NAD binding site [chemical binding]; other site 283942004259 Phe binding site; other site 283942004260 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 283942004261 FAD binding domain; Region: FAD_binding_4; pfam01565 283942004262 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 283942004263 phosphoenolpyruvate synthase; Validated; Region: PRK06464 283942004264 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 283942004265 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 283942004266 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 283942004267 PEP synthetase regulatory protein; Provisional; Region: PRK05339 283942004268 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 283942004269 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 283942004270 heat shock protein HtpX; Provisional; Region: PRK05457 283942004271 AAA domain; Region: AAA_26; pfam13500 283942004272 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 283942004273 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 283942004274 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 283942004275 S-adenosylmethionine binding site [chemical binding]; other site 283942004276 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 283942004277 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 283942004278 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 283942004279 catalytic residue [active] 283942004280 biotin synthase; Provisional; Region: PRK15108 283942004281 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 283942004282 FeS/SAM binding site; other site 283942004283 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 283942004284 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 283942004285 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 283942004286 inhibitor-cofactor binding pocket; inhibition site 283942004287 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283942004288 catalytic residue [active] 283942004289 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 283942004290 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 283942004291 putative anticodon binding site; other site 283942004292 putative dimer interface [polypeptide binding]; other site 283942004293 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 283942004294 homodimer interface [polypeptide binding]; other site 283942004295 motif 1; other site 283942004296 motif 2; other site 283942004297 active site 283942004298 motif 3; other site 283942004299 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 283942004300 putative FMN binding site [chemical binding]; other site 283942004301 protease 4; Provisional; Region: PRK10949 283942004302 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 283942004303 tandem repeat interface [polypeptide binding]; other site 283942004304 oligomer interface [polypeptide binding]; other site 283942004305 active site residues [active] 283942004306 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 283942004307 tandem repeat interface [polypeptide binding]; other site 283942004308 oligomer interface [polypeptide binding]; other site 283942004309 active site residues [active] 283942004310 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 283942004311 active site 283942004312 homodimer interface [polypeptide binding]; other site 283942004313 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 283942004314 Na2 binding site [ion binding]; other site 283942004315 putative substrate binding site 1 [chemical binding]; other site 283942004316 Na binding site 1 [ion binding]; other site 283942004317 putative substrate binding site 2 [chemical binding]; other site 283942004318 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 283942004319 2-methylcitrate dehydratase; Region: prpD; TIGR02330 283942004320 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 283942004321 active site 283942004322 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 283942004323 DNA polymerase III subunit delta'; Validated; Region: PRK08485 283942004324 thymidylate kinase; Validated; Region: tmk; PRK00698 283942004325 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 283942004326 TMP-binding site; other site 283942004327 ATP-binding site [chemical binding]; other site 283942004328 YceG-like family; Region: YceG; pfam02618 283942004329 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 283942004330 dimerization interface [polypeptide binding]; other site 283942004331 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 283942004332 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 283942004333 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283942004334 catalytic residue [active] 283942004335 acyl carrier protein; Provisional; Region: acpP; PRK00982 283942004336 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 283942004337 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 283942004338 NAD(P) binding site [chemical binding]; other site 283942004339 homotetramer interface [polypeptide binding]; other site 283942004340 homodimer interface [polypeptide binding]; other site 283942004341 active site 283942004342 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 283942004343 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 283942004344 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 283942004345 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 283942004346 dimer interface [polypeptide binding]; other site 283942004347 active site 283942004348 CoA binding pocket [chemical binding]; other site 283942004349 putative phosphate acyltransferase; Provisional; Region: PRK05331 283942004350 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 283942004351 hypothetical protein; Provisional; Region: PRK11193 283942004352 Maf-like protein; Region: Maf; pfam02545 283942004353 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 283942004354 active site 283942004355 dimer interface [polypeptide binding]; other site 283942004356 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 283942004357 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 283942004358 motif II; other site 283942004359 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 283942004360 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 283942004361 RNA binding surface [nucleotide binding]; other site 283942004362 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 283942004363 active site 283942004364 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 283942004365 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 283942004366 homodimer interface [polypeptide binding]; other site 283942004367 oligonucleotide binding site [chemical binding]; other site 283942004368 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 283942004369 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 283942004370 active site 283942004371 dimer interface [polypeptide binding]; other site 283942004372 tetratricopeptide repeat protein; Provisional; Region: PRK11788 283942004373 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 283942004374 TPR motif; other site 283942004375 binding surface 283942004376 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 283942004377 binding surface 283942004378 TPR motif; other site 283942004379 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 283942004380 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 283942004381 IHF dimer interface [polypeptide binding]; other site 283942004382 IHF - DNA interface [nucleotide binding]; other site 283942004383 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 283942004384 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 283942004385 RNA binding site [nucleotide binding]; other site 283942004386 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 283942004387 RNA binding site [nucleotide binding]; other site 283942004388 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 283942004389 RNA binding site [nucleotide binding]; other site 283942004390 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 283942004391 RNA binding site [nucleotide binding]; other site 283942004392 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 283942004393 RNA binding site [nucleotide binding]; other site 283942004394 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 283942004395 RNA binding site [nucleotide binding]; other site 283942004396 cytidylate kinase; Provisional; Region: cmk; PRK00023 283942004397 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 283942004398 CMP-binding site; other site 283942004399 The sites determining sugar specificity; other site 283942004400 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 283942004401 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 283942004402 hinge; other site 283942004403 active site 283942004404 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 283942004405 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 283942004406 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283942004407 homodimer interface [polypeptide binding]; other site 283942004408 catalytic residue [active] 283942004409 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 283942004410 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 283942004411 homodimer interface [polypeptide binding]; other site 283942004412 substrate-cofactor binding pocket; other site 283942004413 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283942004414 catalytic residue [active] 283942004415 DNA gyrase subunit A; Validated; Region: PRK05560 283942004416 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 283942004417 CAP-like domain; other site 283942004418 active site 283942004419 primary dimer interface [polypeptide binding]; other site 283942004420 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 283942004421 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 283942004422 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 283942004423 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 283942004424 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 283942004425 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 283942004426 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 283942004427 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 283942004428 S-adenosylmethionine binding site [chemical binding]; other site 283942004429 phosphoglycolate phosphatase; Provisional; Region: PRK13222 283942004430 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 283942004431 motif II; other site 283942004432 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 283942004433 ATP cone domain; Region: ATP-cone; pfam03477 283942004434 Class I ribonucleotide reductase; Region: RNR_I; cd01679 283942004435 active site 283942004436 dimer interface [polypeptide binding]; other site 283942004437 catalytic residues [active] 283942004438 effector binding site; other site 283942004439 R2 peptide binding site; other site 283942004440 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 283942004441 dimer interface [polypeptide binding]; other site 283942004442 putative radical transfer pathway; other site 283942004443 diiron center [ion binding]; other site 283942004444 tyrosyl radical; other site 283942004445 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 283942004446 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 283942004447 catalytic loop [active] 283942004448 iron binding site [ion binding]; other site 283942004449 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 283942004450 GSH binding site [chemical binding]; other site 283942004451 catalytic residues [active] 283942004452 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 283942004453 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 283942004454 ATP binding site [chemical binding]; other site 283942004455 putative Mg++ binding site [ion binding]; other site 283942004456 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 283942004457 nucleotide binding region [chemical binding]; other site 283942004458 Helicase associated domain (HA2); Region: HA2; pfam04408 283942004459 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 283942004460 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 283942004461 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 283942004462 catalytic nucleophile [active] 283942004463 exonuclease I; Provisional; Region: sbcB; PRK11779 283942004464 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 283942004465 active site 283942004466 catalytic site [active] 283942004467 substrate binding site [chemical binding]; other site 283942004468 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 283942004469 choline dehydrogenase; Region: betA; TIGR01810 283942004470 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 283942004471 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 283942004472 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 283942004473 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 283942004474 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 283942004475 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 283942004476 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 283942004477 S-adenosylmethionine binding site [chemical binding]; other site 283942004478 Uncharacterized conserved protein [Function unknown]; Region: COG0327 283942004479 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 283942004480 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 283942004481 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 283942004482 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 283942004483 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 283942004484 S-adenosylmethionine binding site [chemical binding]; other site 283942004485 UAF complex subunit Rrn10; Region: UAF_Rrn10; pfam05234 283942004486 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 283942004487 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 283942004488 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 283942004489 short chain dehydrogenase; Provisional; Region: PRK06101 283942004490 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 283942004491 NAD(P) binding site [chemical binding]; other site 283942004492 active site 283942004493 SnoaL-like domain; Region: SnoaL_2; pfam12680 283942004494 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 283942004495 DNA photolyase; Region: DNA_photolyase; pfam00875 283942004496 Protein of unknown function (DUF523); Region: DUF523; pfam04463 283942004497 Uncharacterized conserved protein [Function unknown]; Region: COG3272 283942004498 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 283942004499 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 283942004500 HrpJ-like domain; Region: HrpJ; cl15454 283942004501 RNA polymerase sigma factor; Provisional; Region: PRK11924 283942004502 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 283942004503 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 283942004504 DNA binding residues [nucleotide binding] 283942004505 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 283942004506 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 283942004507 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 283942004508 IHF dimer interface [polypeptide binding]; other site 283942004509 IHF - DNA interface [nucleotide binding]; other site 283942004510 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 283942004511 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 283942004512 putative tRNA-binding site [nucleotide binding]; other site 283942004513 B3/4 domain; Region: B3_4; pfam03483 283942004514 tRNA synthetase B5 domain; Region: B5; smart00874 283942004515 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 283942004516 dimer interface [polypeptide binding]; other site 283942004517 motif 1; other site 283942004518 motif 3; other site 283942004519 motif 2; other site 283942004520 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 283942004521 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 283942004522 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 283942004523 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 283942004524 dimer interface [polypeptide binding]; other site 283942004525 motif 1; other site 283942004526 active site 283942004527 motif 2; other site 283942004528 motif 3; other site 283942004529 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 283942004530 23S rRNA binding site [nucleotide binding]; other site 283942004531 L21 binding site [polypeptide binding]; other site 283942004532 L13 binding site [polypeptide binding]; other site 283942004533 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 283942004534 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 283942004535 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 283942004536 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 283942004537 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 283942004538 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 283942004539 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 283942004540 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 283942004541 active site 283942004542 dimer interface [polypeptide binding]; other site 283942004543 motif 1; other site 283942004544 motif 2; other site 283942004545 motif 3; other site 283942004546 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 283942004547 anticodon binding site; other site 283942004548 EamA-like transporter family; Region: EamA; pfam00892 283942004549 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 283942004550 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 283942004551 Lumazine binding domain; Region: Lum_binding; pfam00677 283942004552 Lumazine binding domain; Region: Lum_binding; pfam00677 283942004553 Protein of unknown function (DUF3080); Region: DUF3080; pfam11279 283942004554 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 283942004555 Putative cyclase; Region: Cyclase; pfam04199 283942004556 succinic semialdehyde dehydrogenase; Region: PLN02278 283942004557 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 283942004558 tetramerization interface [polypeptide binding]; other site 283942004559 NAD(P) binding site [chemical binding]; other site 283942004560 catalytic residues [active] 283942004561 PAS domain S-box; Region: sensory_box; TIGR00229 283942004562 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 283942004563 putative active site [active] 283942004564 heme pocket [chemical binding]; other site 283942004565 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 283942004566 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 283942004567 Walker A motif; other site 283942004568 ATP binding site [chemical binding]; other site 283942004569 Walker B motif; other site 283942004570 arginine finger; other site 283942004571 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 283942004572 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 283942004573 active site 283942004574 NAD binding site [chemical binding]; other site 283942004575 metal binding site [ion binding]; metal-binding site 283942004576 Gram-negative porin; Region: Porin_4; pfam13609 283942004577 EamA-like transporter family; Region: EamA; cl17759 283942004578 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 283942004579 EamA-like transporter family; Region: EamA; pfam00892 283942004580 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 283942004581 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 283942004582 ATP binding site [chemical binding]; other site 283942004583 Mg++ binding site [ion binding]; other site 283942004584 motif III; other site 283942004585 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 283942004586 nucleotide binding region [chemical binding]; other site 283942004587 ATP-binding site [chemical binding]; other site 283942004588 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 283942004589 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 283942004590 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 283942004591 dimer interface [polypeptide binding]; other site 283942004592 active site 283942004593 heme binding site [chemical binding]; other site 283942004594 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 283942004595 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 283942004596 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 283942004597 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 283942004598 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 283942004599 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_3; cd06237 283942004600 putative active site [active] 283942004601 Zn binding site [ion binding]; other site 283942004602 sulfation-dependent quorum factor, Ax21 family; Region: Y_sulf_Ax21; TIGR04273 283942004603 BCCT family transporter; Region: BCCT; pfam02028 283942004604 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 283942004605 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 283942004606 ligand binding site [chemical binding]; other site 283942004607 flexible hinge region; other site 283942004608 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 283942004609 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 283942004610 metal binding triad; other site 283942004611 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 283942004612 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 283942004613 active site 283942004614 catalytic site [active] 283942004615 substrate binding site [chemical binding]; other site 283942004616 Nitrate and nitrite sensing; Region: NIT; pfam08376 283942004617 HAMP domain; Region: HAMP; pfam00672 283942004618 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 283942004619 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 283942004620 dimer interface [polypeptide binding]; other site 283942004621 putative CheW interface [polypeptide binding]; other site 283942004622 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 283942004623 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 283942004624 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 283942004625 substrate binding site [chemical binding]; other site 283942004626 ligand binding site [chemical binding]; other site 283942004627 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 283942004628 substrate binding site [chemical binding]; other site 283942004629 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 283942004630 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 283942004631 dimer interface [polypeptide binding]; other site 283942004632 active site 283942004633 citrylCoA binding site [chemical binding]; other site 283942004634 oxalacetate/citrate binding site [chemical binding]; other site 283942004635 coenzyme A binding site [chemical binding]; other site 283942004636 catalytic triad [active] 283942004637 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 283942004638 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 283942004639 tetramer interface [polypeptide binding]; other site 283942004640 active site 283942004641 Mg2+/Mn2+ binding site [ion binding]; other site 283942004642 Transcriptional regulators [Transcription]; Region: GntR; COG1802 283942004643 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 283942004644 DNA-binding site [nucleotide binding]; DNA binding site 283942004645 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 283942004646 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 283942004647 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 283942004648 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 283942004649 putative substrate translocation pore; other site 283942004650 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 283942004651 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 283942004652 active site 283942004653 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 283942004654 CoenzymeA binding site [chemical binding]; other site 283942004655 subunit interaction site [polypeptide binding]; other site 283942004656 PHB binding site; other site 283942004657 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 283942004658 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 283942004659 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 283942004660 dimer interface [polypeptide binding]; other site 283942004661 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 283942004662 active site 283942004663 metal binding site [ion binding]; metal-binding site 283942004664 glutathione binding site [chemical binding]; other site 283942004665 Protein of unknown function DUF45; Region: DUF45; pfam01863 283942004666 Ion transport protein; Region: Ion_trans; pfam00520 283942004667 Bacitracin resistance protein BacA; Region: BacA; pfam02673 283942004668 aspartate kinase III; Validated; Region: PRK09084 283942004669 AAK_AKiii-LysC-EC: Amino Acid Kinase Superfamily (AAK), AKiii-LysC-EC: this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKIII. AKIII is a monofunctional class enzyme (LysC) found in some...; Region: AAK_AKiii-LysC-EC; cd04258 283942004670 nucleotide binding site [chemical binding]; other site 283942004671 putative catalytic residues [active] 283942004672 aspartate binding site [chemical binding]; other site 283942004673 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 283942004674 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 283942004675 dimer interface [polypeptide binding]; other site 283942004676 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 283942004677 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 283942004678 putative NAD(P) binding site [chemical binding]; other site 283942004679 putative substrate binding site [chemical binding]; other site 283942004680 catalytic Zn binding site [ion binding]; other site 283942004681 structural Zn binding site [ion binding]; other site 283942004682 dimer interface [polypeptide binding]; other site 283942004683 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 283942004684 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 283942004685 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942004686 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942004687 metal binding site [ion binding]; metal-binding site 283942004688 active site 283942004689 I-site; other site 283942004690 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 283942004691 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 283942004692 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 283942004693 PLD-like domain; Region: PLDc_2; pfam13091 283942004694 putative active site [active] 283942004695 catalytic site [active] 283942004696 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 283942004697 PLD-like domain; Region: PLDc_2; pfam13091 283942004698 putative active site [active] 283942004699 catalytic site [active] 283942004700 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 283942004701 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 283942004702 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 283942004703 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 283942004704 Walker A motif; other site 283942004705 ATP binding site [chemical binding]; other site 283942004706 Walker B motif; other site 283942004707 arginine finger; other site 283942004708 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 283942004709 PAS domain; Region: PAS_9; pfam13426 283942004710 putative active site [active] 283942004711 heme pocket [chemical binding]; other site 283942004712 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 283942004713 putative active site [active] 283942004714 PAS fold; Region: PAS_3; pfam08447 283942004715 heme pocket [chemical binding]; other site 283942004716 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 283942004717 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 283942004718 dimer interface [polypeptide binding]; other site 283942004719 phosphorylation site [posttranslational modification] 283942004720 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942004721 ATP binding site [chemical binding]; other site 283942004722 Mg2+ binding site [ion binding]; other site 283942004723 G-X-G motif; other site 283942004724 Response regulator receiver domain; Region: Response_reg; pfam00072 283942004725 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942004726 active site 283942004727 phosphorylation site [posttranslational modification] 283942004728 intermolecular recognition site; other site 283942004729 dimerization interface [polypeptide binding]; other site 283942004730 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 283942004731 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 283942004732 putative catalytic site [active] 283942004733 putative phosphate binding site [ion binding]; other site 283942004734 active site 283942004735 metal binding site A [ion binding]; metal-binding site 283942004736 DNA binding site [nucleotide binding] 283942004737 putative AP binding site [nucleotide binding]; other site 283942004738 putative metal binding site B [ion binding]; other site 283942004739 Protein of unknown function, DUF412; Region: DUF412; cl01183 283942004740 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; cl00162 283942004741 HPr interaction site; other site 283942004742 glycerol kinase (GK) interaction site [polypeptide binding]; other site 283942004743 active site 283942004744 phosphorylation site [posttranslational modification] 283942004745 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 283942004746 ArsC family; Region: ArsC; pfam03960 283942004747 putative catalytic residues [active] 283942004748 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 283942004749 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 283942004750 metal binding site [ion binding]; metal-binding site 283942004751 dimer interface [polypeptide binding]; other site 283942004752 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 283942004753 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 283942004754 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 283942004755 ATP binding site [chemical binding]; other site 283942004756 active site 283942004757 substrate binding site [chemical binding]; other site 283942004758 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 283942004759 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 283942004760 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 283942004761 dihydrodipicolinate synthase; Region: dapA; TIGR00674 283942004762 dimer interface [polypeptide binding]; other site 283942004763 active site 283942004764 catalytic residue [active] 283942004765 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 283942004766 catalytic triad [active] 283942004767 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 283942004768 Domain of unknown function DUF20; Region: UPF0118; pfam01594 283942004769 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 283942004770 Peptidase family M48; Region: Peptidase_M48; pfam01435 283942004771 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 283942004772 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 283942004773 catalytic residues [active] 283942004774 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 283942004775 ArsC family; Region: ArsC; pfam03960 283942004776 catalytic residues [active] 283942004777 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 283942004778 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 283942004779 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 283942004780 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 283942004781 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 283942004782 Walker A motif; other site 283942004783 ATP binding site [chemical binding]; other site 283942004784 Walker B motif; other site 283942004785 arginine finger; other site 283942004786 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 283942004787 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 283942004788 putative substrate translocation pore; other site 283942004789 phosphoglucomutase; Validated; Region: PRK07564 283942004790 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 283942004791 active site 283942004792 substrate binding site [chemical binding]; other site 283942004793 metal binding site [ion binding]; metal-binding site 283942004794 SeqA protein; Region: SeqA; pfam03925 283942004795 acyl-CoA esterase; Provisional; Region: PRK10673 283942004796 PGAP1-like protein; Region: PGAP1; pfam07819 283942004797 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 283942004798 flavodoxin FldA; Validated; Region: PRK09267 283942004799 ferric uptake regulator; Provisional; Region: fur; PRK09462 283942004800 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 283942004801 metal binding site 2 [ion binding]; metal-binding site 283942004802 putative DNA binding helix; other site 283942004803 metal binding site 1 [ion binding]; metal-binding site 283942004804 dimer interface [polypeptide binding]; other site 283942004805 structural Zn2+ binding site [ion binding]; other site 283942004806 Uncharacterized conserved protein [Function unknown]; Region: COG3268 283942004807 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 283942004808 NAD(P) binding site [chemical binding]; other site 283942004809 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 283942004810 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 283942004811 active site 283942004812 HIGH motif; other site 283942004813 nucleotide binding site [chemical binding]; other site 283942004814 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 283942004815 KMSKS motif; other site 283942004816 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 283942004817 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 283942004818 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 283942004819 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 283942004820 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 283942004821 putative active site [active] 283942004822 short chain dehydrogenase; Provisional; Region: PRK08251 283942004823 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 283942004824 NAD(P) binding site [chemical binding]; other site 283942004825 active site 283942004826 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 283942004827 Phosphotransferase enzyme family; Region: APH; pfam01636 283942004828 putative active site [active] 283942004829 putative substrate binding site [chemical binding]; other site 283942004830 ATP binding site [chemical binding]; other site 283942004831 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 283942004832 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 283942004833 active site 283942004834 helicase 45; Provisional; Region: PTZ00424 283942004835 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 283942004836 ATP binding site [chemical binding]; other site 283942004837 Mg++ binding site [ion binding]; other site 283942004838 motif III; other site 283942004839 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 283942004840 nucleotide binding region [chemical binding]; other site 283942004841 ATP-binding site [chemical binding]; other site 283942004842 similar to signaling protein with GGDEF and EAL domains; contains frameshift 283942004843 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 283942004844 Golgi phosphoprotein 3 (GPP34); Region: GPP34; pfam05719 283942004845 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 283942004846 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 283942004847 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 283942004848 DPS ferroxidase diiron center [ion binding]; other site 283942004849 ion pore; other site 283942004850 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 283942004851 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 283942004852 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 283942004853 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 283942004854 CoA binding domain; Region: CoA_binding; pfam02629 283942004855 CoA-ligase; Region: Ligase_CoA; pfam00549 283942004856 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 283942004857 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 283942004858 CoA-ligase; Region: Ligase_CoA; pfam00549 283942004859 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 283942004860 E3 interaction surface; other site 283942004861 lipoyl attachment site [posttranslational modification]; other site 283942004862 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 283942004863 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 283942004864 E3 interaction surface; other site 283942004865 lipoyl attachment site [posttranslational modification]; other site 283942004866 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 283942004867 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 283942004868 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 283942004869 TPP-binding site [chemical binding]; other site 283942004870 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 283942004871 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 283942004872 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 283942004873 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 283942004874 L-aspartate oxidase; Provisional; Region: PRK06175 283942004875 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 283942004876 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 283942004877 SdhC subunit interface [polypeptide binding]; other site 283942004878 proximal heme binding site [chemical binding]; other site 283942004879 cardiolipin binding site; other site 283942004880 Iron-sulfur protein interface; other site 283942004881 proximal quinone binding site [chemical binding]; other site 283942004882 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 283942004883 Iron-sulfur protein interface; other site 283942004884 proximal quinone binding site [chemical binding]; other site 283942004885 SdhD (CybS) interface [polypeptide binding]; other site 283942004886 proximal heme binding site [chemical binding]; other site 283942004887 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 283942004888 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 283942004889 dimer interface [polypeptide binding]; other site 283942004890 active site 283942004891 citrylCoA binding site [chemical binding]; other site 283942004892 NADH binding [chemical binding]; other site 283942004893 cationic pore residues; other site 283942004894 oxalacetate/citrate binding site [chemical binding]; other site 283942004895 coenzyme A binding site [chemical binding]; other site 283942004896 catalytic triad [active] 283942004897 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; cl15377 283942004898 Radical SAM superfamily; Region: Radical_SAM; pfam04055 283942004899 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 283942004900 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 283942004901 Ligand binding site; other site 283942004902 oligomer interface; other site 283942004903 Uncharacterized conserved protein [Function unknown]; Region: COG2835 283942004904 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 283942004905 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 283942004906 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 283942004907 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 283942004908 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 283942004909 Walker A/P-loop; other site 283942004910 ATP binding site [chemical binding]; other site 283942004911 Q-loop/lid; other site 283942004912 ABC transporter signature motif; other site 283942004913 Walker B; other site 283942004914 D-loop; other site 283942004915 H-loop/switch region; other site 283942004916 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 283942004917 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 283942004918 Competence protein; Region: Competence; pfam03772 283942004919 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 283942004920 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 283942004921 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 283942004922 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 283942004923 FtsX-like permease family; Region: FtsX; pfam02687 283942004924 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 283942004925 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 283942004926 Walker A/P-loop; other site 283942004927 ATP binding site [chemical binding]; other site 283942004928 Q-loop/lid; other site 283942004929 ABC transporter signature motif; other site 283942004930 Walker B; other site 283942004931 D-loop; other site 283942004932 H-loop/switch region; other site 283942004933 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 283942004934 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 283942004935 FtsX-like permease family; Region: FtsX; pfam02687 283942004936 PilZ domain; Region: PilZ; pfam07238 283942004937 transcription-repair coupling factor; Provisional; Region: PRK10689 283942004938 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 283942004939 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 283942004940 ATP binding site [chemical binding]; other site 283942004941 putative Mg++ binding site [ion binding]; other site 283942004942 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 283942004943 nucleotide binding region [chemical binding]; other site 283942004944 ATP-binding site [chemical binding]; other site 283942004945 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 283942004946 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 283942004947 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 283942004948 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 283942004949 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 283942004950 MarR family; Region: MarR; pfam01047 283942004951 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 283942004952 generic binding surface II; other site 283942004953 generic binding surface I; other site 283942004954 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 283942004955 putative active site [active] 283942004956 putative catalytic site [active] 283942004957 putative Mg binding site IVb [ion binding]; other site 283942004958 putative DNA binding site [nucleotide binding]; other site 283942004959 putative phosphate binding site [ion binding]; other site 283942004960 putative Mg binding site IVa [ion binding]; other site 283942004961 methionine sulfoxide reductase A; Provisional; Region: PRK14054 283942004962 methionine sulfoxide reductase B; Provisional; Region: PRK00222 283942004963 SelR domain; Region: SelR; pfam01641 283942004964 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 283942004965 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 283942004966 active site 283942004967 dimer interface [polypeptide binding]; other site 283942004968 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 283942004969 Ligand Binding Site [chemical binding]; other site 283942004970 Molecular Tunnel; other site 283942004971 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 283942004972 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 283942004973 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 283942004974 Na(+)/urea-polyamine cotransporter DUR3, and related proteins; solute-binding domain; Region: SLC5sbd_DUR3; cd11476 283942004975 Na binding site [ion binding]; other site 283942004976 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; cl00233 283942004977 catalytic center binding site [active] 283942004978 ATP binding site [chemical binding]; other site 283942004979 dihydromonapterin reductase; Provisional; Region: PRK06483 283942004980 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 283942004981 NADP binding site [chemical binding]; other site 283942004982 substrate binding pocket [chemical binding]; other site 283942004983 active site 283942004984 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 283942004985 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 283942004986 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 283942004987 aconitate hydratase; Validated; Region: PRK09277 283942004988 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 283942004989 substrate binding site [chemical binding]; other site 283942004990 ligand binding site [chemical binding]; other site 283942004991 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 283942004992 substrate binding site [chemical binding]; other site 283942004993 acyl-CoA thioesterase II; Provisional; Region: PRK10526 283942004994 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 283942004995 active site 283942004996 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 283942004997 catalytic triad [active] 283942004998 dimer interface [polypeptide binding]; other site 283942004999 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 283942005000 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 283942005001 Nucleoside recognition; Region: Gate; pfam07670 283942005002 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 283942005003 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 283942005004 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 283942005005 ATP-binding site [chemical binding]; other site 283942005006 Sugar specificity; other site 283942005007 Pyrimidine base specificity; other site 283942005008 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 283942005009 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 283942005010 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 283942005011 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 283942005012 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 283942005013 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 283942005014 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 283942005015 PAS domain; Region: PAS_9; pfam13426 283942005016 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942005017 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942005018 metal binding site [ion binding]; metal-binding site 283942005019 active site 283942005020 I-site; other site 283942005021 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 283942005022 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 283942005023 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 283942005024 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 283942005025 Beta-Casp domain; Region: Beta-Casp; smart01027 283942005026 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 283942005027 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 283942005028 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 283942005029 active site 283942005030 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 283942005031 PAS domain S-box; Region: sensory_box; TIGR00229 283942005032 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 283942005033 putative active site [active] 283942005034 heme pocket [chemical binding]; other site 283942005035 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942005036 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942005037 metal binding site [ion binding]; metal-binding site 283942005038 active site 283942005039 I-site; other site 283942005040 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 283942005041 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 283942005042 ATP binding site [chemical binding]; other site 283942005043 Mg++ binding site [ion binding]; other site 283942005044 motif III; other site 283942005045 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 283942005046 nucleotide binding region [chemical binding]; other site 283942005047 ATP-binding site [chemical binding]; other site 283942005048 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 283942005049 putative active site [active] 283942005050 Zn binding site [ion binding]; other site 283942005051 YebG protein; Region: YebG; pfam07130 283942005052 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 283942005053 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 283942005054 putative substrate translocation pore; other site 283942005055 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 283942005056 hypothetical protein; Provisional; Region: PRK09256 283942005057 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 283942005058 Beta-lactamase; Region: Beta-lactamase; pfam00144 283942005059 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 283942005060 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 283942005061 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 283942005062 homodimer interface [polypeptide binding]; other site 283942005063 substrate-cofactor binding pocket; other site 283942005064 catalytic residue [active] 283942005065 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 283942005066 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 283942005067 BON domain; Region: BON; pfam04972 283942005068 Bacterial PH domain; Region: DUF304; pfam03703 283942005069 Predicted membrane protein [Function unknown]; Region: COG3428 283942005070 Bacterial PH domain; Region: DUF304; pfam03703 283942005071 Bacterial PH domain; Region: DUF304; pfam03703 283942005072 Bacterial PH domain; Region: DUF304; pfam03703 283942005073 Protein of unknown function (DUF938); Region: DUF938; pfam06080 283942005074 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 283942005075 Glycine zipper; Region: Gly-zipper_Omp; cl17724 283942005076 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 283942005077 ligand binding site [chemical binding]; other site 283942005078 NAD-dependent deacetylase; Provisional; Region: PRK05333 283942005079 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein...; Region: SIRT4; cd01409 283942005080 NAD+ binding site [chemical binding]; other site 283942005081 substrate binding site [chemical binding]; other site 283942005082 Zn binding site [ion binding]; other site 283942005083 LemA family; Region: LemA; cl00742 283942005084 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 283942005085 glycerate dehydrogenase; Provisional; Region: PRK06487 283942005086 putative ligand binding site [chemical binding]; other site 283942005087 putative NAD binding site [chemical binding]; other site 283942005088 catalytic site [active] 283942005089 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 283942005090 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 283942005091 benzoate transporter; Region: benE; TIGR00843 283942005092 Protein of unknown function (DUF817); Region: DUF817; pfam05675 283942005093 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 283942005094 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 283942005095 motif II; other site 283942005096 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 283942005097 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 283942005098 N-terminal plug; other site 283942005099 ligand-binding site [chemical binding]; other site 283942005100 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 283942005101 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 283942005102 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 283942005103 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 283942005104 uncharacterized iron-regulated membrane protein; authentic frameshift 283942005105 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 283942005106 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 283942005107 N-terminal plug; other site 283942005108 ligand-binding site [chemical binding]; other site 283942005109 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 283942005110 catalytic core [active] 283942005111 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 283942005112 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 283942005113 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 283942005114 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 283942005115 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 283942005116 Domain of unknown function (DUF947); Region: DUF947; pfam06102 283942005117 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 283942005118 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 283942005119 active site 283942005120 metal binding site [ion binding]; metal-binding site 283942005121 Secretin and TonB N terminus short domain; Region: STN; smart00965 283942005122 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 283942005123 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 283942005124 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 283942005125 ligand-binding site [chemical binding]; other site 283942005126 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 283942005127 FecR protein; Region: FecR; pfam04773 283942005128 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 283942005129 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 283942005130 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 283942005131 DNA binding residues [nucleotide binding] 283942005132 PHP domain; Region: PHP; pfam02811 283942005133 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 283942005134 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 283942005135 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 283942005136 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 283942005137 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 283942005138 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 283942005139 putative NAD(P) binding site [chemical binding]; other site 283942005140 myosin-cross-reactive antigen; Provisional; Region: PRK13977 283942005141 YjgH belongs 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 similarity and no...; Region: YjgH_like; cd02198 283942005142 homotrimer interaction site [polypeptide binding]; other site 283942005143 putative active site [active] 283942005144 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 283942005145 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 283942005146 Methyltransferase domain; Region: Methyltransf_23; pfam13489 283942005147 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 283942005148 S-adenosylmethionine binding site [chemical binding]; other site 283942005149 Transcriptional regulator; Region: Rrf2; pfam02082 283942005150 Rrf2 family protein; Region: rrf2_super; TIGR00738 283942005151 Transcriptional regulator; Region: Rrf2; cl17282 283942005152 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 283942005153 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 283942005154 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 283942005155 CGNR zinc finger; Region: zf-CGNR; pfam11706 283942005156 MFS transport protein AraJ; Provisional; Region: PRK10091 283942005157 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 283942005158 putative substrate translocation pore; other site 283942005159 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 283942005160 salt bridge; other site 283942005161 non-specific DNA binding site [nucleotide binding]; other site 283942005162 sequence-specific DNA binding site [nucleotide binding]; other site 283942005163 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 283942005164 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 283942005165 NAD(P) binding site [chemical binding]; other site 283942005166 active site 283942005167 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 283942005168 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 283942005169 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 283942005170 dimerization interface [polypeptide binding]; other site 283942005171 substrate binding pocket [chemical binding]; other site 283942005172 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 283942005173 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 283942005174 Transcriptional regulator [Transcription]; Region: LysR; COG0583 283942005175 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 283942005176 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 283942005177 dimerization interface [polypeptide binding]; other site 283942005178 Part of AAA domain; Region: AAA_19; pfam13245 283942005179 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 283942005180 AAA domain; Region: AAA_12; pfam13087 283942005181 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 283942005182 Transposase; Region: HTH_Tnp_1; pfam01527 283942005183 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 283942005184 putative transposase OrfB; Reviewed; Region: PHA02517 283942005185 HTH-like domain; Region: HTH_21; pfam13276 283942005186 Integrase core domain; Region: rve; pfam00665 283942005187 Integrase core domain; Region: rve_3; cl15866 283942005188 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 283942005189 ADP-ribose binding site [chemical binding]; other site 283942005190 similar to type I restriction-modification system methyltransferase subunit; authentic fragment 283942005191 SEC-C motif; Region: SEC-C; pfam02810 283942005192 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 283942005193 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 283942005194 putative active site [active] 283942005195 metal binding site [ion binding]; metal-binding site 283942005196 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 283942005197 AAA domain; Region: AAA_13; pfam13166 283942005198 similar to transposase related protein; contains frameshift 283942005199 Transposase; Region: HTH_Tnp_1; pfam01527 283942005200 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 283942005201 Integrase core domain; Region: rve; pfam00665 283942005202 Integrase core domain; Region: rve_2; pfam13333 283942005203 LytTr DNA-binding domain; Region: LytTR; smart00850 283942005204 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 283942005205 active site 283942005206 DNA binding site [nucleotide binding] 283942005207 Int/Topo IB signature motif; other site 283942005208 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 283942005209 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 283942005210 HlyD family secretion protein; Region: HlyD_3; pfam13437 283942005211 Outer membrane efflux protein; Region: OEP; pfam02321 283942005212 Outer membrane efflux protein; Region: OEP; pfam02321 283942005213 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 283942005214 lipoprotein signal peptidase; Provisional; Region: PRK14787 283942005215 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 283942005216 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 283942005217 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 283942005218 DNA binding residues [nucleotide binding] 283942005219 dimer interface [polypeptide binding]; other site 283942005220 putative metal binding site [ion binding]; other site 283942005221 Outer membrane efflux protein; Region: OEP; pfam02321 283942005222 Outer membrane efflux protein; Region: OEP; pfam02321 283942005223 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 283942005224 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 283942005225 HlyD family secretion protein; Region: HlyD_3; pfam13437 283942005226 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 283942005227 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 283942005228 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 283942005229 hypothetical protein; Provisional; Region: PRK02237 283942005230 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 283942005231 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 283942005232 DNA binding residues [nucleotide binding] 283942005233 dimer interface [polypeptide binding]; other site 283942005234 mercury binding site [ion binding]; other site 283942005235 putative mercuric transport protein; Provisional; Region: PRK13751 283942005236 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 283942005237 metal-binding site [ion binding] 283942005238 putative mercuric reductase; Provisional; Region: PRK14694 283942005239 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 283942005240 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 283942005241 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 283942005242 sensor protein QseC; Provisional; Region: PRK10337 283942005243 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 283942005244 dimer interface [polypeptide binding]; other site 283942005245 phosphorylation site [posttranslational modification] 283942005246 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942005247 ATP binding site [chemical binding]; other site 283942005248 Mg2+ binding site [ion binding]; other site 283942005249 G-X-G motif; other site 283942005250 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 283942005251 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942005252 active site 283942005253 phosphorylation site [posttranslational modification] 283942005254 intermolecular recognition site; other site 283942005255 dimerization interface [polypeptide binding]; other site 283942005256 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 283942005257 DNA binding site [nucleotide binding] 283942005258 putative metal dependent hydrolase; Provisional; Region: PRK11598 283942005259 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 283942005260 Sulfatase; Region: Sulfatase; pfam00884 283942005261 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 283942005262 active site 283942005263 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 283942005264 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 283942005265 Sulfatase; Region: Sulfatase; pfam00884 283942005266 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 283942005267 integrase; Provisional; Region: PRK09692 283942005268 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 283942005269 active site 283942005270 Int/Topo IB signature motif; other site 283942005271 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 283942005272 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 283942005273 conserved cys residue [active] 283942005274 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 283942005275 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_family; cd02803 283942005276 active site 283942005277 FMN binding site [chemical binding]; other site 283942005278 substrate binding site [chemical binding]; other site 283942005279 putative catalytic residue [active] 283942005280 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 283942005281 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 283942005282 Coenzyme A binding pocket [chemical binding]; other site 283942005283 Peptidase_C39 like family; Region: DUF3335; pfam11814 283942005284 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 283942005285 Cation transport protein; Region: TrkH; cl17365 283942005286 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 283942005287 dimer interface [polypeptide binding]; other site 283942005288 phosphorylation site [posttranslational modification] 283942005289 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942005290 ATP binding site [chemical binding]; other site 283942005291 Mg2+ binding site [ion binding]; other site 283942005292 G-X-G motif; other site 283942005293 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 283942005294 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942005295 active site 283942005296 phosphorylation site [posttranslational modification] 283942005297 intermolecular recognition site; other site 283942005298 dimerization interface [polypeptide binding]; other site 283942005299 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 283942005300 DNA binding site [nucleotide binding] 283942005301 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 283942005302 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 283942005303 dimerization interface [polypeptide binding]; other site 283942005304 putative ATP binding site [chemical binding]; other site 283942005305 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 283942005306 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 283942005307 active site 283942005308 substrate binding site [chemical binding]; other site 283942005309 cosubstrate binding site; other site 283942005310 catalytic site [active] 283942005311 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 283942005312 Transposase; Region: DEDD_Tnp_IS110; pfam01548 283942005313 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 283942005314 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 283942005315 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 283942005316 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 283942005317 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 283942005318 active site 283942005319 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 283942005320 AbgT putative transporter family; Region: ABG_transport; pfam03806 283942005321 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 283942005322 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 283942005323 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 283942005324 putative substrate translocation pore; other site 283942005325 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 283942005326 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 283942005327 active site 283942005328 metal binding site [ion binding]; metal-binding site 283942005329 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 283942005330 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 283942005331 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 283942005332 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 283942005333 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 283942005334 RNA/DNA hybrid binding site [nucleotide binding]; other site 283942005335 active site 283942005336 AbgT putative transporter family; Region: ABG_transport; cl17431 283942005337 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 283942005338 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 283942005339 PAS domain; Region: PAS_9; pfam13426 283942005340 putative active site [active] 283942005341 heme pocket [chemical binding]; other site 283942005342 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 283942005343 PAS domain; Region: PAS_9; pfam13426 283942005344 putative active site [active] 283942005345 heme pocket [chemical binding]; other site 283942005346 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 283942005347 dimer interface [polypeptide binding]; other site 283942005348 putative CheW interface [polypeptide binding]; other site 283942005349 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 283942005350 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 283942005351 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 283942005352 EamA-like transporter family; Region: EamA; pfam00892 283942005353 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 283942005354 EamA-like transporter family; Region: EamA; pfam00892 283942005355 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 283942005356 putative catalytic site [active] 283942005357 putative phosphate binding site [ion binding]; other site 283942005358 putative metal binding site [ion binding]; other site 283942005359 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 283942005360 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 283942005361 E3 interaction surface; other site 283942005362 lipoyl attachment site [posttranslational modification]; other site 283942005363 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 283942005364 E3 interaction surface; other site 283942005365 lipoyl attachment site [posttranslational modification]; other site 283942005366 e3 binding domain; Region: E3_binding; pfam02817 283942005367 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 283942005368 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 283942005369 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 283942005370 alpha subunit interface [polypeptide binding]; other site 283942005371 TPP binding site [chemical binding]; other site 283942005372 heterodimer interface [polypeptide binding]; other site 283942005373 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 283942005374 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 283942005375 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 283942005376 tetramer interface [polypeptide binding]; other site 283942005377 TPP-binding site [chemical binding]; other site 283942005378 heterodimer interface [polypeptide binding]; other site 283942005379 phosphorylation loop region [posttranslational modification] 283942005380 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 283942005381 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 283942005382 putative active site [active] 283942005383 Zn binding site [ion binding]; other site 283942005384 Protein of unknown function, DUF599; Region: DUF599; pfam04654 283942005385 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 283942005386 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 283942005387 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 283942005388 HlyD family secretion protein; Region: HlyD_3; pfam13437 283942005389 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 283942005390 putative cation:proton antiport protein; Provisional; Region: PRK10669 283942005391 TrkA-N domain; Region: TrkA_N; pfam02254 283942005392 TrkA-C domain; Region: TrkA_C; pfam02080 283942005393 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942005394 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942005395 metal binding site [ion binding]; metal-binding site 283942005396 active site 283942005397 I-site; other site 283942005398 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 283942005399 TilS substrate binding domain; Region: TilS; pfam09179 283942005400 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 283942005401 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 283942005402 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 283942005403 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 283942005404 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 283942005405 putative active site [active] 283942005406 putative PHP Thumb interface [polypeptide binding]; other site 283942005407 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 283942005408 generic binding surface I; other site 283942005409 generic binding surface II; other site 283942005410 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 283942005411 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 283942005412 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 283942005413 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 283942005414 active site 283942005415 Zn binding site [ion binding]; other site 283942005416 TIGR03503 family protein; Region: TIGR03503 283942005417 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 283942005418 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 283942005419 active site 283942005420 catalytic site [active] 283942005421 substrate binding site [chemical binding]; other site 283942005422 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 283942005423 RNA/DNA hybrid binding site [nucleotide binding]; other site 283942005424 active site 283942005425 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 283942005426 active site residue [active] 283942005427 Methyltransferase domain; Region: Methyltransf_23; pfam13489 283942005428 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 283942005429 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 283942005430 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 283942005431 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 283942005432 N-acetyl-D-glucosamine binding site [chemical binding]; other site 283942005433 catalytic residue [active] 283942005434 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 283942005435 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 283942005436 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 283942005437 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 283942005438 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 283942005439 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 283942005440 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 283942005441 nucleotide binding pocket [chemical binding]; other site 283942005442 K-X-D-G motif; other site 283942005443 catalytic site [active] 283942005444 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 283942005445 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 283942005446 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 283942005447 Dimer interface [polypeptide binding]; other site 283942005448 BRCT sequence motif; other site 283942005449 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 283942005450 FtsZ protein binding site [polypeptide binding]; other site 283942005451 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 283942005452 AAA domain; Region: AAA_23; pfam13476 283942005453 Walker A/P-loop; other site 283942005454 ATP binding site [chemical binding]; other site 283942005455 Q-loop/lid; other site 283942005456 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 283942005457 ABC transporter signature motif; other site 283942005458 Walker B; other site 283942005459 D-loop; other site 283942005460 H-loop/switch region; other site 283942005461 putative sulfate transport protein CysZ; Validated; Region: PRK04949 283942005462 RmuC family; Region: RmuC; pfam02646 283942005463 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 283942005464 Fumarase C-terminus; Region: Fumerase_C; pfam05683 283942005465 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 283942005466 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 283942005467 chorismate binding enzyme; Region: Chorismate_bind; cl10555 283942005468 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 283942005469 putative active site [active] 283942005470 putative CoA binding site [chemical binding]; other site 283942005471 nudix motif; other site 283942005472 metal binding site [ion binding]; metal-binding site 283942005473 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 283942005474 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 283942005475 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 283942005476 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 283942005477 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 283942005478 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 283942005479 substrate binding site [chemical binding]; other site 283942005480 dimerization interface [polypeptide binding]; other site 283942005481 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 283942005482 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942005483 ATP binding site [chemical binding]; other site 283942005484 G-X-G motif; other site 283942005485 translation initiation factor Sui1; Validated; Region: PRK06824 283942005486 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 283942005487 putative rRNA binding site [nucleotide binding]; other site 283942005488 Response regulator receiver domain; Region: Response_reg; pfam00072 283942005489 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942005490 active site 283942005491 phosphorylation site [posttranslational modification] 283942005492 intermolecular recognition site; other site 283942005493 dimerization interface [polypeptide binding]; other site 283942005494 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 283942005495 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 283942005496 anti sigma factor interaction site; other site 283942005497 regulatory phosphorylation site [posttranslational modification]; other site 283942005498 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 283942005499 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942005500 active site 283942005501 phosphorylation site [posttranslational modification] 283942005502 intermolecular recognition site; other site 283942005503 dimerization interface [polypeptide binding]; other site 283942005504 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 283942005505 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942005506 active site 283942005507 phosphorylation site [posttranslational modification] 283942005508 intermolecular recognition site; other site 283942005509 dimerization interface [polypeptide binding]; other site 283942005510 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 283942005511 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 283942005512 active site 283942005513 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 283942005514 Amidohydrolase; Region: Amidohydro_4; pfam13147 283942005515 active site 283942005516 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 283942005517 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 283942005518 active site 283942005519 Cytochrome C' Region: Cytochrom_C_2; pfam01322 283942005520 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 283942005521 Response regulator receiver domain; Region: Response_reg; pfam00072 283942005522 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942005523 active site 283942005524 phosphorylation site [posttranslational modification] 283942005525 intermolecular recognition site; other site 283942005526 dimerization interface [polypeptide binding]; other site 283942005527 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 283942005528 Chorismate mutase type II; Region: CM_2; cl00693 283942005529 prephenate dehydrogenase; Validated; Region: PRK08507 283942005530 DNA-J related protein; Region: DNAJ_related; pfam12339 283942005531 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 283942005532 HSP70 interaction site [polypeptide binding]; other site 283942005533 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 283942005534 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 283942005535 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 283942005536 RimM N-terminal domain; Region: RimM; pfam01782 283942005537 PRC-barrel domain; Region: PRC; pfam05239 283942005538 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 283942005539 signal recognition particle protein; Provisional; Region: PRK10867 283942005540 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 283942005541 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 283942005542 P loop; other site 283942005543 GTP binding site [chemical binding]; other site 283942005544 Signal peptide binding domain; Region: SRP_SPB; pfam02978 283942005545 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 283942005546 hypothetical protein; Provisional; Region: PRK11573 283942005547 Domain of unknown function DUF21; Region: DUF21; pfam01595 283942005548 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 283942005549 Transporter associated domain; Region: CorC_HlyC; smart01091 283942005550 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 283942005551 N-acetyl-D-glucosamine binding site [chemical binding]; other site 283942005552 catalytic residue [active] 283942005553 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 283942005554 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 283942005555 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 283942005556 dimer interface [polypeptide binding]; other site 283942005557 phosphorylation site [posttranslational modification] 283942005558 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942005559 ATP binding site [chemical binding]; other site 283942005560 Mg2+ binding site [ion binding]; other site 283942005561 G-X-G motif; other site 283942005562 Response regulator receiver domain; Region: Response_reg; pfam00072 283942005563 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942005564 active site 283942005565 phosphorylation site [posttranslational modification] 283942005566 intermolecular recognition site; other site 283942005567 dimerization interface [polypeptide binding]; other site 283942005568 Response regulator receiver domain; Region: Response_reg; pfam00072 283942005569 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942005570 active site 283942005571 phosphorylation site [posttranslational modification] 283942005572 intermolecular recognition site; other site 283942005573 dimerization interface [polypeptide binding]; other site 283942005574 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 283942005575 putative binding surface; other site 283942005576 active site 283942005577 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 283942005578 oxaloacetate decarboxylase; Provisional; Region: PRK14040 283942005579 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 283942005580 active site 283942005581 catalytic residues [active] 283942005582 metal binding site [ion binding]; metal-binding site 283942005583 homodimer binding site [polypeptide binding]; other site 283942005584 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 283942005585 carboxyltransferase (CT) interaction site; other site 283942005586 biotinylation site [posttranslational modification]; other site 283942005587 oxaloacetate decarboxylase subunit gamma; Provisional; Region: PRK03814 283942005588 carbon storage regulator; Provisional; Region: PRK01712 283942005589 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 283942005590 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 283942005591 motif 1; other site 283942005592 active site 283942005593 motif 2; other site 283942005594 motif 3; other site 283942005595 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 283942005596 DHHA1 domain; Region: DHHA1; pfam02272 283942005597 recombination regulator RecX; Reviewed; Region: recX; PRK00117 283942005598 Uncharacterized conserved protein [Function unknown]; Region: COG2968 283942005599 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 283942005600 Tetratricopeptide repeat; Region: TPR_12; pfam13424 283942005601 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 283942005602 TPR motif; other site 283942005603 binding surface 283942005604 Tetratricopeptide repeat; Region: TPR_12; pfam13424 283942005605 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942005606 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942005607 metal binding site [ion binding]; metal-binding site 283942005608 active site 283942005609 I-site; other site 283942005610 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 283942005611 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 283942005612 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 283942005613 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 283942005614 RNA binding surface [nucleotide binding]; other site 283942005615 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 283942005616 probable active site [active] 283942005617 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 283942005618 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 283942005619 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 283942005620 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 283942005621 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 283942005622 active site 283942005623 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 283942005624 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 283942005625 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 283942005626 active site 283942005627 FMN binding site [chemical binding]; other site 283942005628 2,4-decadienoyl-CoA binding site; other site 283942005629 catalytic residue [active] 283942005630 4Fe-4S cluster binding site [ion binding]; other site 283942005631 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 283942005632 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 283942005633 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 283942005634 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 283942005635 anthranilate synthase component I; Provisional; Region: PRK13564 283942005636 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 283942005637 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 283942005638 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 283942005639 Glutamine amidotransferase class-I; Region: GATase; pfam00117 283942005640 glutamine binding [chemical binding]; other site 283942005641 catalytic triad [active] 283942005642 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 283942005643 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 283942005644 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 283942005645 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 283942005646 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 283942005647 active site 283942005648 ribulose/triose binding site [chemical binding]; other site 283942005649 phosphate binding site [ion binding]; other site 283942005650 substrate (anthranilate) binding pocket [chemical binding]; other site 283942005651 product (indole) binding pocket [chemical binding]; other site 283942005652 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 283942005653 active site 283942005654 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 283942005655 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 283942005656 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283942005657 catalytic residue [active] 283942005658 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 283942005659 substrate binding site [chemical binding]; other site 283942005660 active site 283942005661 catalytic residues [active] 283942005662 heterodimer interface [polypeptide binding]; other site 283942005663 Intracellular septation protein A; Region: IspA; pfam04279 283942005664 YciI-like protein; Reviewed; Region: PRK11370 283942005665 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 283942005666 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 283942005667 Predicted membrane protein [Function unknown]; Region: COG3174 283942005668 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 283942005669 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 283942005670 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1; Region: PLPDE_III_DSD_D-TA_like_1; cd06812 283942005671 dimer interface [polypeptide binding]; other site 283942005672 active site 283942005673 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 283942005674 substrate binding site [chemical binding]; other site 283942005675 catalytic residue [active] 283942005676 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 283942005677 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 283942005678 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 283942005679 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 283942005680 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 283942005681 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 283942005682 NAD(P) binding site [chemical binding]; other site 283942005683 active site 283942005684 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 283942005685 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 283942005686 FtsX-like permease family; Region: FtsX; pfam02687 283942005687 FtsX-like permease family; Region: FtsX; pfam02687 283942005688 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 283942005689 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 283942005690 Walker A/P-loop; other site 283942005691 ATP binding site [chemical binding]; other site 283942005692 Q-loop/lid; other site 283942005693 ABC transporter signature motif; other site 283942005694 Walker B; other site 283942005695 D-loop; other site 283942005696 H-loop/switch region; other site 283942005697 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 283942005698 active site 283942005699 catalytic triad [active] 283942005700 oxyanion hole [active] 283942005701 switch loop; other site 283942005702 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 283942005703 active site clefts [active] 283942005704 zinc binding site [ion binding]; other site 283942005705 dimer interface [polypeptide binding]; other site 283942005706 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 283942005707 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 283942005708 active site 283942005709 HIGH motif; other site 283942005710 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 283942005711 active site 283942005712 KMSKS motif; other site 283942005713 Transcriptional regulator [Transcription]; Region: LysR; COG0583 283942005714 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 283942005715 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like_1; cd08470 283942005716 putative effector binding pocket; other site 283942005717 putative dimerization interface [polypeptide binding]; other site 283942005718 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 283942005719 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 283942005720 substrate binding site [chemical binding]; other site 283942005721 catalytic Zn binding site [ion binding]; other site 283942005722 NAD binding site [chemical binding]; other site 283942005723 structural Zn binding site [ion binding]; other site 283942005724 dimer interface [polypeptide binding]; other site 283942005725 S-formylglutathione hydrolase; Region: PLN02442 283942005726 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 283942005727 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 283942005728 Transposase; Region: DEDD_Tnp_IS110; pfam01548 283942005729 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 283942005730 HAMP domain; Region: HAMP; pfam00672 283942005731 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 283942005732 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 283942005733 dimer interface [polypeptide binding]; other site 283942005734 putative CheW interface [polypeptide binding]; other site 283942005735 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 283942005736 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 283942005737 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 283942005738 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 283942005739 aspartate racemase; Region: asp_race; TIGR00035 283942005740 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 283942005741 sulfation-dependent quorum factor, Ax21 family; Region: Y_sulf_Ax21; TIGR04273 283942005742 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 283942005743 Protein of unknown function (DUF502); Region: DUF502; cl01107 283942005744 hypothetical protein; Provisional; Region: PRK04233 283942005745 SEC-C motif; Region: SEC-C; pfam02810 283942005746 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942005747 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 283942005748 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 283942005749 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 283942005750 Transposase; Region: DEDD_Tnp_IS110; pfam01548 283942005751 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 283942005752 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 283942005753 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 283942005754 excinuclease ABC subunit B; Provisional; Region: PRK05298 283942005755 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 283942005756 ATP binding site [chemical binding]; other site 283942005757 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 283942005758 nucleotide binding region [chemical binding]; other site 283942005759 ATP-binding site [chemical binding]; other site 283942005760 Ultra-violet resistance protein B; Region: UvrB; pfam12344 283942005761 UvrB/uvrC motif; Region: UVR; pfam02151 283942005762 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_2; cd13149 283942005763 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 283942005764 aspartate aminotransferase; Provisional; Region: PRK05764 283942005765 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 283942005766 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283942005767 homodimer interface [polypeptide binding]; other site 283942005768 catalytic residue [active] 283942005769 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 283942005770 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 283942005771 active site 283942005772 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 283942005773 electron transport complex protein RsxA; Provisional; Region: PRK05151 283942005774 electron transport complex protein RnfB; Provisional; Region: PRK05113 283942005775 Putative Fe-S cluster; Region: FeS; pfam04060 283942005776 4Fe-4S binding domain; Region: Fer4; pfam00037 283942005777 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 283942005778 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 283942005779 lipoyl-biotinyl attachment site [posttranslational modification]; other site 283942005780 SLBB domain; Region: SLBB; pfam10531 283942005781 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 283942005782 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 283942005783 electron transport complex protein RnfG; Validated; Region: PRK01908 283942005784 electron transport complex RsxE subunit; Provisional; Region: PRK12405 283942005785 endonuclease III; Provisional; Region: PRK10702 283942005786 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 283942005787 minor groove reading motif; other site 283942005788 helix-hairpin-helix signature motif; other site 283942005789 substrate binding pocket [chemical binding]; other site 283942005790 active site 283942005791 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 283942005792 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 283942005793 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 283942005794 ligand binding site [chemical binding]; other site 283942005795 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 283942005796 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 283942005797 dimer interface [polypeptide binding]; other site 283942005798 catalytic site [active] 283942005799 putative active site [active] 283942005800 putative substrate binding site [chemical binding]; other site 283942005801 peroxidase; Provisional; Region: PRK15000 283942005802 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 283942005803 dimer interface [polypeptide binding]; other site 283942005804 decamer (pentamer of dimers) interface [polypeptide binding]; other site 283942005805 catalytic triad [active] 283942005806 peroxidatic and resolving cysteines [active] 283942005807 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 283942005808 putative GSH binding site [chemical binding]; other site 283942005809 catalytic residues [active] 283942005810 superoxide dismutase; Provisional; Region: PRK10543 283942005811 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 283942005812 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 283942005813 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 283942005814 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 283942005815 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 283942005816 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 283942005817 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 283942005818 catalytic site [active] 283942005819 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 283942005820 Predicted periplasmic protein [Function unknown]; Region: COG3904 283942005821 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 283942005822 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 283942005823 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 283942005824 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 283942005825 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 283942005826 Coenzyme A binding pocket [chemical binding]; other site 283942005827 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 283942005828 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 283942005829 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 283942005830 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 283942005831 Beta-lactamase; Region: Beta-lactamase; pfam00144 283942005832 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 283942005833 DNA binding site [nucleotide binding] 283942005834 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 283942005835 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 283942005836 fatty acid metabolism regulator; Provisional; Region: PRK04984 283942005837 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 283942005838 DNA-binding site [nucleotide binding]; DNA binding site 283942005839 FadR C-terminal domain; Region: FadR_C; pfam07840 283942005840 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 283942005841 hypothetical protein; Provisional; Region: PRK05170 283942005842 Transglycosylase SLT domain; Region: SLT_2; pfam13406 283942005843 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 283942005844 N-acetyl-D-glucosamine binding site [chemical binding]; other site 283942005845 YcgL domain; Region: YcgL; pfam05166 283942005846 ribonuclease D; Provisional; Region: PRK10829 283942005847 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 283942005848 catalytic site [active] 283942005849 putative active site [active] 283942005850 putative substrate binding site [chemical binding]; other site 283942005851 HRDC domain; Region: HRDC; pfam00570 283942005852 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 283942005853 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 283942005854 acyl-activating enzyme (AAE) consensus motif; other site 283942005855 putative AMP binding site [chemical binding]; other site 283942005856 putative active site [active] 283942005857 putative CoA binding site [chemical binding]; other site 283942005858 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 283942005859 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 283942005860 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 283942005861 Glycoprotease family; Region: Peptidase_M22; pfam00814 283942005862 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 283942005863 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 283942005864 ATP binding site [chemical binding]; other site 283942005865 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 283942005866 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 283942005867 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 283942005868 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 283942005869 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 283942005870 histidinol dehydrogenase; Region: hisD; TIGR00069 283942005871 NAD binding site [chemical binding]; other site 283942005872 dimerization interface [polypeptide binding]; other site 283942005873 product binding site; other site 283942005874 substrate binding site [chemical binding]; other site 283942005875 zinc binding site [ion binding]; other site 283942005876 catalytic residues [active] 283942005877 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 283942005878 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 283942005879 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283942005880 homodimer interface [polypeptide binding]; other site 283942005881 catalytic residue [active] 283942005882 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 283942005883 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 283942005884 active site 283942005885 motif I; other site 283942005886 motif II; other site 283942005887 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 283942005888 putative active site pocket [active] 283942005889 4-fold oligomerization interface [polypeptide binding]; other site 283942005890 metal binding residues [ion binding]; metal-binding site 283942005891 3-fold/trimer interface [polypeptide binding]; other site 283942005892 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 283942005893 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 283942005894 putative active site [active] 283942005895 oxyanion strand; other site 283942005896 catalytic triad [active] 283942005897 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 283942005898 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 283942005899 catalytic residues [active] 283942005900 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 283942005901 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 283942005902 substrate binding site [chemical binding]; other site 283942005903 glutamase interaction surface [polypeptide binding]; other site 283942005904 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 283942005905 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 283942005906 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 283942005907 metal binding site [ion binding]; metal-binding site 283942005908 multidrug efflux protein; Reviewed; Region: PRK01766 283942005909 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 283942005910 cation binding site [ion binding]; other site 283942005911 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 283942005912 S-formylglutathione hydrolase; Region: PLN02442 283942005913 MAPEG family; Region: MAPEG; cl09190 283942005914 adenylate kinase; Reviewed; Region: adk; PRK00279 283942005915 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 283942005916 AMP-binding site [chemical binding]; other site 283942005917 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 283942005918 heat shock protein 90; Provisional; Region: PRK05218 283942005919 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942005920 ATP binding site [chemical binding]; other site 283942005921 Mg2+ binding site [ion binding]; other site 283942005922 G-X-G motif; other site 283942005923 recombination protein RecR; Reviewed; Region: recR; PRK00076 283942005924 RecR protein; Region: RecR; pfam02132 283942005925 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 283942005926 putative active site [active] 283942005927 putative metal-binding site [ion binding]; other site 283942005928 tetramer interface [polypeptide binding]; other site 283942005929 hypothetical protein; Validated; Region: PRK00153 283942005930 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 283942005931 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 283942005932 Walker A motif; other site 283942005933 ATP binding site [chemical binding]; other site 283942005934 Walker B motif; other site 283942005935 DNA polymerase III subunit delta'; Validated; Region: PRK08485 283942005936 arginine finger; other site 283942005937 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 283942005938 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 283942005939 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 283942005940 active site 283942005941 Response regulator receiver domain; Region: Response_reg; pfam00072 283942005942 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942005943 active site 283942005944 phosphorylation site [posttranslational modification] 283942005945 intermolecular recognition site; other site 283942005946 dimerization interface [polypeptide binding]; other site 283942005947 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 283942005948 hypothetical protein; Provisional; Region: PRK05409 283942005949 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 283942005950 binding surface 283942005951 TPR motif; other site 283942005952 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 283942005953 binding surface 283942005954 TPR motif; other site 283942005955 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 283942005956 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 283942005957 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 283942005958 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 283942005959 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 283942005960 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 283942005961 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 283942005962 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 283942005963 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 283942005964 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 283942005965 putative active site [active] 283942005966 Zn binding site [ion binding]; other site 283942005967 Late competence development protein ComFB; Region: ComFB; pfam10719 283942005968 enoyl-CoA hydratase; Provisional; Region: PRK06688 283942005969 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 283942005970 substrate binding site [chemical binding]; other site 283942005971 oxyanion hole (OAH) forming residues; other site 283942005972 trimer interface [polypeptide binding]; other site 283942005973 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 283942005974 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 283942005975 dimer interface [polypeptide binding]; other site 283942005976 active site 283942005977 CoA binding pocket [chemical binding]; other site 283942005978 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 283942005979 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 283942005980 active site 283942005981 muropeptide transporter; Reviewed; Region: ampG; PRK11902 283942005982 muropeptide transporter; Validated; Region: ampG; cl17669 283942005983 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 283942005984 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 283942005985 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 283942005986 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 283942005987 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 283942005988 dimerization interface [polypeptide binding]; other site 283942005989 active site 283942005990 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 283942005991 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 283942005992 catalytic motif [active] 283942005993 Zn binding site [ion binding]; other site 283942005994 RibD C-terminal domain; Region: RibD_C; cl17279 283942005995 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 283942005996 ATP cone domain; Region: ATP-cone; pfam03477 283942005997 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 283942005998 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 283942005999 dimer interface [polypeptide binding]; other site 283942006000 active site 283942006001 glycine-pyridoxal phosphate binding site [chemical binding]; other site 283942006002 folate binding site [chemical binding]; other site 283942006003 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 283942006004 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 283942006005 Walker A/P-loop; other site 283942006006 ATP binding site [chemical binding]; other site 283942006007 Q-loop/lid; other site 283942006008 ABC transporter signature motif; other site 283942006009 Walker B; other site 283942006010 D-loop; other site 283942006011 H-loop/switch region; other site 283942006012 ABC transporter; Region: ABC_tran_2; pfam12848 283942006013 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 283942006014 DNA repair protein RadA; Provisional; Region: PRK11823 283942006015 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 283942006016 Walker A motif; other site 283942006017 ATP binding site [chemical binding]; other site 283942006018 Walker B motif; other site 283942006019 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 283942006020 PilZ domain; Region: PilZ; pfam07238 283942006021 PilZ domain; Region: PilZ; pfam07238 283942006022 phosphoserine phosphatase SerB; Region: serB; TIGR00338 283942006023 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 283942006024 motif II; other site 283942006025 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 283942006026 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 283942006027 active site 283942006028 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 283942006029 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 283942006030 G1 box; other site 283942006031 putative GEF interaction site [polypeptide binding]; other site 283942006032 GTP/Mg2+ binding site [chemical binding]; other site 283942006033 Switch I region; other site 283942006034 G2 box; other site 283942006035 G3 box; other site 283942006036 Switch II region; other site 283942006037 G4 box; other site 283942006038 G5 box; other site 283942006039 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 283942006040 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 283942006041 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 283942006042 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 283942006043 dimerization interface [polypeptide binding]; other site 283942006044 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 283942006045 dimer interface [polypeptide binding]; other site 283942006046 putative CheW interface [polypeptide binding]; other site 283942006047 phosphopentomutase; Provisional; Region: PRK05362 283942006048 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 283942006049 thymidine phosphorylase; Region: T_phosphoryl; TIGR02643 283942006050 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 283942006051 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 283942006052 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 283942006053 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 283942006054 intersubunit interface [polypeptide binding]; other site 283942006055 active site 283942006056 catalytic residue [active] 283942006057 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 283942006058 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 283942006059 Coenzyme A binding pocket [chemical binding]; other site 283942006060 HDOD domain; Region: HDOD; pfam08668 283942006061 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 283942006062 Surface antigen; Region: Bac_surface_Ag; pfam01103 283942006063 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 283942006064 Family of unknown function (DUF490); Region: DUF490; pfam04357 283942006065 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 283942006066 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 283942006067 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 283942006068 alphaNTD homodimer interface [polypeptide binding]; other site 283942006069 alphaNTD - beta interaction site [polypeptide binding]; other site 283942006070 alphaNTD - beta' interaction site [polypeptide binding]; other site 283942006071 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 283942006072 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 283942006073 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 283942006074 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 283942006075 RNA binding surface [nucleotide binding]; other site 283942006076 30S ribosomal protein S11; Validated; Region: PRK05309 283942006077 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 283942006078 30S ribosomal protein S13; Region: bact_S13; TIGR03631 283942006079 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 283942006080 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 283942006081 SecY translocase; Region: SecY; pfam00344 283942006082 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 283942006083 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 283942006084 23S rRNA binding site [nucleotide binding]; other site 283942006085 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 283942006086 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 283942006087 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 283942006088 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 283942006089 5S rRNA interface [nucleotide binding]; other site 283942006090 23S rRNA interface [nucleotide binding]; other site 283942006091 L5 interface [polypeptide binding]; other site 283942006092 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 283942006093 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 283942006094 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 283942006095 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 283942006096 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 283942006097 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 283942006098 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 283942006099 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 283942006100 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 283942006101 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 283942006102 RNA binding site [nucleotide binding]; other site 283942006103 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 283942006104 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 283942006105 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 283942006106 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 283942006107 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 283942006108 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 283942006109 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 283942006110 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 283942006111 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 283942006112 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 283942006113 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 283942006114 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 283942006115 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 283942006116 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 283942006117 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 283942006118 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 283942006119 23S rRNA interface [nucleotide binding]; other site 283942006120 putative translocon interaction site; other site 283942006121 signal recognition particle (SRP54) interaction site; other site 283942006122 L23 interface [polypeptide binding]; other site 283942006123 trigger factor interaction site; other site 283942006124 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 283942006125 23S rRNA interface [nucleotide binding]; other site 283942006126 5S rRNA interface [nucleotide binding]; other site 283942006127 putative antibiotic binding site [chemical binding]; other site 283942006128 L25 interface [polypeptide binding]; other site 283942006129 L27 interface [polypeptide binding]; other site 283942006130 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 283942006131 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 283942006132 G-X-X-G motif; other site 283942006133 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 283942006134 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 283942006135 putative translocon binding site; other site 283942006136 protein-rRNA interface [nucleotide binding]; other site 283942006137 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 283942006138 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 283942006139 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 283942006140 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 283942006141 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 283942006142 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 283942006143 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 283942006144 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 283942006145 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 283942006146 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 283942006147 active site 283942006148 dimer interface [polypeptide binding]; other site 283942006149 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 283942006150 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 283942006151 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 283942006152 FMN binding site [chemical binding]; other site 283942006153 active site 283942006154 catalytic residues [active] 283942006155 substrate binding site [chemical binding]; other site 283942006156 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 283942006157 metal binding site 2 [ion binding]; metal-binding site 283942006158 putative DNA binding helix; other site 283942006159 metal binding site 1 [ion binding]; metal-binding site 283942006160 dimer interface [polypeptide binding]; other site 283942006161 structural Zn2+ binding site [ion binding]; other site 283942006162 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 283942006163 Zn binding site [ion binding]; other site 283942006164 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 283942006165 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 283942006166 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 283942006167 replicative DNA helicase; Region: DnaB; TIGR00665 283942006168 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 283942006169 Walker A motif; other site 283942006170 ATP binding site [chemical binding]; other site 283942006171 Walker B motif; other site 283942006172 DNA binding loops [nucleotide binding] 283942006173 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 283942006174 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 283942006175 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 283942006176 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 283942006177 DNA binding residues [nucleotide binding] 283942006178 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 283942006179 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 283942006180 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 283942006181 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 283942006182 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 283942006183 dimer interface [polypeptide binding]; other site 283942006184 ssDNA binding site [nucleotide binding]; other site 283942006185 tetramer (dimer of dimers) interface [polypeptide binding]; other site 283942006186 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 283942006187 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 283942006188 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 283942006189 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 283942006190 ribonuclease R; Region: RNase_R; TIGR02063 283942006191 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 283942006192 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 283942006193 RNB domain; Region: RNB; pfam00773 283942006194 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 283942006195 RNA binding site [nucleotide binding]; other site 283942006196 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 283942006197 RDD family; Region: RDD; pfam06271 283942006198 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 283942006199 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 283942006200 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 283942006201 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 283942006202 multifunctional aminopeptidase A; Provisional; Region: PRK00913 283942006203 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 283942006204 interface (dimer of trimers) [polypeptide binding]; other site 283942006205 Substrate-binding/catalytic site; other site 283942006206 Zn-binding sites [ion binding]; other site 283942006207 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 283942006208 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 283942006209 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 283942006210 HIGH motif; other site 283942006211 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 283942006212 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 283942006213 active site 283942006214 KMSKS motif; other site 283942006215 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 283942006216 tRNA binding surface [nucleotide binding]; other site 283942006217 anticodon binding site; other site 283942006218 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 283942006219 RNase E inhibitor protein; Provisional; Region: PRK11191 283942006220 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 283942006221 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 283942006222 putative acyl-acceptor binding pocket; other site 283942006223 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 283942006224 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 283942006225 CAP-like domain; other site 283942006226 active site 283942006227 primary dimer interface [polypeptide binding]; other site 283942006228 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 283942006229 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942006230 ATP binding site [chemical binding]; other site 283942006231 Mg2+ binding site [ion binding]; other site 283942006232 G-X-G motif; other site 283942006233 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 283942006234 anchoring element; other site 283942006235 dimer interface [polypeptide binding]; other site 283942006236 ATP binding site [chemical binding]; other site 283942006237 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 283942006238 active site 283942006239 metal binding site [ion binding]; metal-binding site 283942006240 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 283942006241 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 283942006242 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 283942006243 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 283942006244 dimer interface [polypeptide binding]; other site 283942006245 ADP-ribose binding site [chemical binding]; other site 283942006246 active site 283942006247 nudix motif; other site 283942006248 metal binding site [ion binding]; metal-binding site 283942006249 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 283942006250 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 283942006251 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 283942006252 putative acyl-acceptor binding pocket; other site 283942006253 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 283942006254 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 283942006255 metal binding triad; other site 283942006256 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 283942006257 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 283942006258 metal binding triad; other site 283942006259 Uncharacterized conserved protein [Function unknown]; Region: COG3025 283942006260 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 283942006261 putative active site [active] 283942006262 putative metal binding residues [ion binding]; other site 283942006263 signature motif; other site 283942006264 putative triphosphate binding site [ion binding]; other site 283942006265 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 283942006266 Proline dehydrogenase; Region: Pro_dh; pfam01619 283942006267 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 283942006268 Glutamate binding site [chemical binding]; other site 283942006269 NAD binding site [chemical binding]; other site 283942006270 catalytic residues [active] 283942006271 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 283942006272 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 283942006273 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 283942006274 active site 283942006275 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 283942006276 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 283942006277 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 283942006278 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 283942006279 Walker A motif; other site 283942006280 ATP binding site [chemical binding]; other site 283942006281 Walker B motif; other site 283942006282 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 283942006283 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 283942006284 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 283942006285 active site 283942006286 NTP binding site [chemical binding]; other site 283942006287 metal binding triad [ion binding]; metal-binding site 283942006288 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 283942006289 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 283942006290 catalytic center binding site [active] 283942006291 ATP binding site [chemical binding]; other site 283942006292 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 283942006293 homooctamer interface [polypeptide binding]; other site 283942006294 active site 283942006295 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 283942006296 UGMP family protein; Validated; Region: PRK09604 283942006297 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 283942006298 amidase; Provisional; Region: PRK08137 283942006299 Amidase; Region: Amidase; cl11426 283942006300 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 283942006301 putative active site [active] 283942006302 putative metal binding site [ion binding]; other site 283942006303 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 283942006304 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 283942006305 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 283942006306 Walker A motif; other site 283942006307 ATP binding site [chemical binding]; other site 283942006308 Walker B motif; other site 283942006309 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 283942006310 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 283942006311 catalytic residue [active] 283942006312 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 283942006313 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 283942006314 YGGT family; Region: YGGT; pfam02325 283942006315 YGGT family; Region: YGGT; pfam02325 283942006316 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 283942006317 potassium/proton antiporter; Reviewed; Region: PRK05326 283942006318 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 283942006319 TrkA-C domain; Region: TrkA_C; pfam02080 283942006320 Transporter associated domain; Region: CorC_HlyC; smart01091 283942006321 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 283942006322 active site 283942006323 dimerization interface [polypeptide binding]; other site 283942006324 HemN family oxidoreductase; Provisional; Region: PRK05660 283942006325 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 283942006326 FeS/SAM binding site; other site 283942006327 HemN C-terminal domain; Region: HemN_C; pfam06969 283942006328 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 283942006329 S-adenosylmethionine binding site [chemical binding]; other site 283942006330 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 283942006331 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 283942006332 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 283942006333 ligand binding site [chemical binding]; other site 283942006334 adenine DNA glycosylase; Provisional; Region: PRK10880 283942006335 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 283942006336 minor groove reading motif; other site 283942006337 helix-hairpin-helix signature motif; other site 283942006338 substrate binding pocket [chemical binding]; other site 283942006339 active site 283942006340 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 283942006341 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 283942006342 DNA binding and oxoG recognition site [nucleotide binding] 283942006343 oxidative damage protection protein; Provisional; Region: PRK05408 283942006344 gamma-glutamyl kinase; Provisional; Region: PRK05429 283942006345 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 283942006346 nucleotide binding site [chemical binding]; other site 283942006347 homotetrameric interface [polypeptide binding]; other site 283942006348 putative phosphate binding site [ion binding]; other site 283942006349 putative allosteric binding site; other site 283942006350 PUA domain; Region: PUA; pfam01472 283942006351 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 283942006352 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 283942006353 putative catalytic cysteine [active] 283942006354 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 283942006355 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 283942006356 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 283942006357 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 283942006358 active site 283942006359 ATP binding site [chemical binding]; other site 283942006360 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 283942006361 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 283942006362 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 283942006363 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 283942006364 helicase 45; Provisional; Region: PTZ00424 283942006365 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 283942006366 ATP binding site [chemical binding]; other site 283942006367 Mg++ binding site [ion binding]; other site 283942006368 motif III; other site 283942006369 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 283942006370 nucleotide binding region [chemical binding]; other site 283942006371 ATP-binding site [chemical binding]; other site 283942006372 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 283942006373 putative RNA binding site [nucleotide binding]; other site 283942006374 succinic semialdehyde dehydrogenase; Region: PLN02278 283942006375 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 283942006376 tetramerization interface [polypeptide binding]; other site 283942006377 NAD(P) binding site [chemical binding]; other site 283942006378 catalytic residues [active] 283942006379 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 283942006380 ALDH subfamily: Coniferyl aldehyde dehydrogenase, ALDH families 3, 13, and 14, and other related proteins; Region: ALDH_F3-13-14_CALDH-like; cd07087 283942006381 NAD(P) binding site [chemical binding]; other site 283942006382 catalytic residues [active] 283942006383 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 283942006384 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 283942006385 Predicted ATPase [General function prediction only]; Region: COG1485 283942006386 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 283942006387 Walker A motif; other site 283942006388 ATP binding site [chemical binding]; other site 283942006389 Walker B motif; other site 283942006390 arginine finger; other site 283942006391 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 283942006392 Na2 binding site [ion binding]; other site 283942006393 putative substrate binding site 1 [chemical binding]; other site 283942006394 Na binding site 1 [ion binding]; other site 283942006395 putative substrate binding site 2 [chemical binding]; other site 283942006396 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 283942006397 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 283942006398 Mitochondrial ribosomal death-associated protein 3; Region: DAP3; pfam10236 283942006399 Helicase; Region: Helicase_RecD; pfam05127 283942006400 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 283942006401 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 283942006402 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 283942006403 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 283942006404 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 283942006405 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 283942006406 dimer interface [polypeptide binding]; other site 283942006407 active site 283942006408 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 283942006409 catalytic residues [active] 283942006410 substrate binding site [chemical binding]; other site 283942006411 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 283942006412 Sel1-like repeats; Region: SEL1; smart00671 283942006413 Type III pantothenate kinase; Region: Pan_kinase; pfam03309 283942006414 Biotin operon repressor [Transcription]; Region: BirA; COG1654 283942006415 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 283942006416 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 283942006417 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 283942006418 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 283942006419 FAD binding domain; Region: FAD_binding_4; pfam01565 283942006420 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 283942006421 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 283942006422 Na binding site [ion binding]; other site 283942006423 PAS fold; Region: PAS_7; pfam12860 283942006424 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 283942006425 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 283942006426 dimer interface [polypeptide binding]; other site 283942006427 phosphorylation site [posttranslational modification] 283942006428 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942006429 ATP binding site [chemical binding]; other site 283942006430 Mg2+ binding site [ion binding]; other site 283942006431 G-X-G motif; other site 283942006432 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 283942006433 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942006434 active site 283942006435 phosphorylation site [posttranslational modification] 283942006436 intermolecular recognition site; other site 283942006437 dimerization interface [polypeptide binding]; other site 283942006438 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 283942006439 DNA binding residues [nucleotide binding] 283942006440 dimerization interface [polypeptide binding]; other site 283942006441 acetyl-CoA synthetase; Provisional; Region: PRK00174 283942006442 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 283942006443 active site 283942006444 CoA binding site [chemical binding]; other site 283942006445 acyl-activating enzyme (AAE) consensus motif; other site 283942006446 AMP binding site [chemical binding]; other site 283942006447 acetate binding site [chemical binding]; other site 283942006448 Porin subfamily; Region: Porin_2; pfam02530 283942006449 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 283942006450 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 283942006451 polyphosphate kinase; Provisional; Region: PRK05443 283942006452 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 283942006453 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 283942006454 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 283942006455 domain interface [polypeptide binding]; other site 283942006456 active site 283942006457 catalytic site [active] 283942006458 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 283942006459 domain interface [polypeptide binding]; other site 283942006460 active site 283942006461 catalytic site [active] 283942006462 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 283942006463 dimer interface [polypeptide binding]; other site 283942006464 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 283942006465 active site 283942006466 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 283942006467 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 283942006468 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 283942006469 generic binding surface II; other site 283942006470 generic binding surface I; other site 283942006471 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 283942006472 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 283942006473 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 283942006474 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 283942006475 homodimer interface [polypeptide binding]; other site 283942006476 substrate-cofactor binding pocket; other site 283942006477 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283942006478 catalytic residue [active] 283942006479 mechanosensitive channel MscS; Provisional; Region: PRK10334 283942006480 Conserved TM helix; Region: TM_helix; pfam05552 283942006481 Mechanosensitive ion channel; Region: MS_channel; pfam00924 283942006482 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 283942006483 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 283942006484 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 283942006485 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 283942006486 GspL periplasmic domain; Region: GspL_C; cl14909 283942006487 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 283942006488 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 283942006489 type II secretion system protein J; Region: gspJ; TIGR01711 283942006490 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 283942006491 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 283942006492 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 283942006493 Type II transport protein GspH; Region: GspH; pfam12019 283942006494 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 283942006495 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 283942006496 type II secretion system protein F; Region: GspF; TIGR02120 283942006497 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 283942006498 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 283942006499 type II secretion system protein E; Region: type_II_gspE; TIGR02533 283942006500 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 283942006501 Walker A motif; other site 283942006502 ATP binding site [chemical binding]; other site 283942006503 Walker B motif; other site 283942006504 type II secretion system protein D; Region: type_II_gspD; TIGR02517 283942006505 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 283942006506 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 283942006507 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 283942006508 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 283942006509 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 283942006510 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 283942006511 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 283942006512 RNA binding surface [nucleotide binding]; other site 283942006513 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 283942006514 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 283942006515 dimerization interface [polypeptide binding]; other site 283942006516 domain crossover interface; other site 283942006517 redox-dependent activation switch; other site 283942006518 GTP-binding protein Der; Reviewed; Region: PRK00093 283942006519 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 283942006520 G1 box; other site 283942006521 GTP/Mg2+ binding site [chemical binding]; other site 283942006522 Switch I region; other site 283942006523 G2 box; other site 283942006524 Switch II region; other site 283942006525 G3 box; other site 283942006526 G4 box; other site 283942006527 G5 box; other site 283942006528 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 283942006529 G1 box; other site 283942006530 GTP/Mg2+ binding site [chemical binding]; other site 283942006531 Switch I region; other site 283942006532 G2 box; other site 283942006533 G3 box; other site 283942006534 Switch II region; other site 283942006535 G4 box; other site 283942006536 G5 box; other site 283942006537 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 283942006538 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 283942006539 Trp docking motif [polypeptide binding]; other site 283942006540 active site 283942006541 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 283942006542 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 283942006543 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 283942006544 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 283942006545 dimer interface [polypeptide binding]; other site 283942006546 motif 1; other site 283942006547 active site 283942006548 motif 2; other site 283942006549 motif 3; other site 283942006550 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 283942006551 anticodon binding site; other site 283942006552 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 283942006553 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 283942006554 cytoskeletal protein RodZ; Provisional; Region: PRK10856 283942006555 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 283942006556 non-specific DNA binding site [nucleotide binding]; other site 283942006557 salt bridge; other site 283942006558 sequence-specific DNA binding site [nucleotide binding]; other site 283942006559 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 283942006560 TPR repeat; Region: TPR_11; pfam13414 283942006561 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 283942006562 binding surface 283942006563 TPR motif; other site 283942006564 TPR repeat; Region: TPR_11; pfam13414 283942006565 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 283942006566 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 283942006567 FeS/SAM binding site; other site 283942006568 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 283942006569 active site 283942006570 multimer interface [polypeptide binding]; other site 283942006571 methionine sulfoxide reductase A; Provisional; Region: PRK14054 283942006572 cysteine desulfurase; Provisional; Region: PRK14012 283942006573 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 283942006574 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 283942006575 catalytic residue [active] 283942006576 Transcriptional regulator; Region: Rrf2; cl17282 283942006577 Rrf2 family protein; Region: rrf2_super; TIGR00738 283942006578 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 283942006579 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 283942006580 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 283942006581 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 283942006582 active site 283942006583 dimerization interface [polypeptide binding]; other site 283942006584 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 283942006585 Nuclease-related domain; Region: NERD; pfam08378 283942006586 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 283942006587 Fic/DOC family; Region: Fic; pfam02661 283942006588 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 283942006589 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 283942006590 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 283942006591 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 283942006592 putative heme binding pocket [chemical binding]; other site 283942006593 Protein of unknown function, DUF393; Region: DUF393; pfam04134 283942006594 DNA ligase; Provisional; Region: PRK09125 283942006595 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 283942006596 DNA binding site [nucleotide binding] 283942006597 active site 283942006598 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 283942006599 DNA binding site [nucleotide binding] 283942006600 Plasmid maintenance system killer protein; Region: Plasmid_killer; pfam05015 283942006601 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 283942006602 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 283942006603 sequence-specific DNA binding site [nucleotide binding]; other site 283942006604 salt bridge; other site 283942006605 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 283942006606 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 283942006607 HlyD family secretion protein; Region: HlyD_3; pfam13437 283942006608 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 283942006609 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 283942006610 Walker A/P-loop; other site 283942006611 ATP binding site [chemical binding]; other site 283942006612 Q-loop/lid; other site 283942006613 ABC transporter signature motif; other site 283942006614 Walker B; other site 283942006615 D-loop; other site 283942006616 H-loop/switch region; other site 283942006617 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 283942006618 FtsX-like permease family; Region: FtsX; pfam02687 283942006619 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 283942006620 FtsX-like permease family; Region: FtsX; pfam02687 283942006621 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 283942006622 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942006623 active site 283942006624 phosphorylation site [posttranslational modification] 283942006625 intermolecular recognition site; other site 283942006626 dimerization interface [polypeptide binding]; other site 283942006627 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 283942006628 Walker A motif; other site 283942006629 ATP binding site [chemical binding]; other site 283942006630 Walker B motif; other site 283942006631 arginine finger; other site 283942006632 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 283942006633 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 283942006634 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942006635 ATP binding site [chemical binding]; other site 283942006636 Mg2+ binding site [ion binding]; other site 283942006637 G-X-G motif; other site 283942006638 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 283942006639 PAS domain; Region: PAS_9; pfam13426 283942006640 putative active site [active] 283942006641 heme pocket [chemical binding]; other site 283942006642 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 283942006643 PAS domain; Region: PAS_9; pfam13426 283942006644 putative active site [active] 283942006645 heme pocket [chemical binding]; other site 283942006646 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 283942006647 dimer interface [polypeptide binding]; other site 283942006648 putative CheW interface [polypeptide binding]; other site 283942006649 diguanylate cyclase; Provisional; Region: PRK09894 283942006650 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 283942006651 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942006652 metal binding site [ion binding]; metal-binding site 283942006653 active site 283942006654 I-site; other site 283942006655 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 283942006656 Cupin domain; Region: Cupin_2; cl17218 283942006657 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 283942006658 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 283942006659 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 283942006660 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 283942006661 catalytic residues [active] 283942006662 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 283942006663 Domain of unknown function (DUF4269); Region: DUF4269; pfam14091 283942006664 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 283942006665 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 283942006666 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 283942006667 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 283942006668 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 283942006669 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 283942006670 Walker A/P-loop; other site 283942006671 ATP binding site [chemical binding]; other site 283942006672 Q-loop/lid; other site 283942006673 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 283942006674 ABC transporter; Region: ABC_tran_2; pfam12848 283942006675 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 283942006676 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 283942006677 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 283942006678 ligand binding site [chemical binding]; other site 283942006679 flexible hinge region; other site 283942006680 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 283942006681 dimer interface [polypeptide binding]; other site 283942006682 FMN binding site [chemical binding]; other site 283942006683 Protein of unknown function, DUF606; Region: DUF606; pfam04657 283942006684 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 283942006685 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 283942006686 Coenzyme A binding pocket [chemical binding]; other site 283942006687 Haemolytic domain; Region: Haemolytic; pfam01809 283942006688 HipA N-terminal domain; Region: Couple_hipA; pfam13657 283942006689 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 283942006690 HipA-like N-terminal domain; Region: HipA_N; pfam07805 283942006691 HipA-like C-terminal domain; Region: HipA_C; pfam07804 283942006692 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 283942006693 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 283942006694 non-specific DNA binding site [nucleotide binding]; other site 283942006695 salt bridge; other site 283942006696 sequence-specific DNA binding site [nucleotide binding]; other site 283942006697 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 283942006698 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 283942006699 Putative esterase; Region: Esterase; pfam00756 283942006700 AAA domain; Region: AAA_21; pfam13304 283942006701 glycine dehydrogenase; Provisional; Region: PRK05367 283942006702 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 283942006703 tetramer interface [polypeptide binding]; other site 283942006704 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283942006705 catalytic residue [active] 283942006706 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 283942006707 tetramer interface [polypeptide binding]; other site 283942006708 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283942006709 catalytic residue [active] 283942006710 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 283942006711 lipoyl attachment site [posttranslational modification]; other site 283942006712 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 283942006713 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 283942006714 Transcriptional regulator [Transcription]; Region: LysR; COG0583 283942006715 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 283942006716 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 283942006717 dimerization interface [polypeptide binding]; other site 283942006718 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 283942006719 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 283942006720 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 283942006721 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 283942006722 proline aminopeptidase P II; Provisional; Region: PRK10879 283942006723 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 283942006724 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 283942006725 active site 283942006726 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 283942006727 Cell division protein ZapA; Region: ZapA; cl01146 283942006728 Amidohydrolase; Region: Amidohydro_5; pfam13594 283942006729 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 283942006730 Amidohydrolase; Region: Amidohydro_4; pfam13147 283942006731 active site 283942006732 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 283942006733 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 283942006734 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 283942006735 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 283942006736 tetramer (dimer of dimers) interface [polypeptide binding]; other site 283942006737 active site 283942006738 dimer interface [polypeptide binding]; other site 283942006739 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 283942006740 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 283942006741 ligand binding site [chemical binding]; other site 283942006742 NAD binding site [chemical binding]; other site 283942006743 tetramer interface [polypeptide binding]; other site 283942006744 catalytic site [active] 283942006745 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 283942006746 L-serine binding site [chemical binding]; other site 283942006747 ACT domain interface; other site 283942006748 transcriptional regulator PhoU; Provisional; Region: PRK11115 283942006749 PhoU domain; Region: PhoU; pfam01895 283942006750 PhoU domain; Region: PhoU; pfam01895 283942006751 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 283942006752 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 283942006753 Walker A/P-loop; other site 283942006754 ATP binding site [chemical binding]; other site 283942006755 Q-loop/lid; other site 283942006756 ABC transporter signature motif; other site 283942006757 Walker B; other site 283942006758 D-loop; other site 283942006759 H-loop/switch region; other site 283942006760 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 283942006761 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 283942006762 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 283942006763 dimer interface [polypeptide binding]; other site 283942006764 conserved gate region; other site 283942006765 putative PBP binding loops; other site 283942006766 ABC-ATPase subunit interface; other site 283942006767 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 283942006768 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 283942006769 dimer interface [polypeptide binding]; other site 283942006770 conserved gate region; other site 283942006771 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 283942006772 ABC-ATPase subunit interface; other site 283942006773 PBP superfamily domain; Region: PBP_like_2; cl17296 283942006774 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 283942006775 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 283942006776 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 283942006777 dimer interface [polypeptide binding]; other site 283942006778 phosphorylation site [posttranslational modification] 283942006779 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942006780 ATP binding site [chemical binding]; other site 283942006781 Mg2+ binding site [ion binding]; other site 283942006782 G-X-G motif; other site 283942006783 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 283942006784 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942006785 active site 283942006786 phosphorylation site [posttranslational modification] 283942006787 intermolecular recognition site; other site 283942006788 dimerization interface [polypeptide binding]; other site 283942006789 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 283942006790 DNA binding site [nucleotide binding] 283942006791 Predicted permeases [General function prediction only]; Region: COG0679 283942006792 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 283942006793 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 283942006794 trimer interface [polypeptide binding]; other site 283942006795 eyelet of channel; other site 283942006796 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 283942006797 binding surface 283942006798 TPR motif; other site 283942006799 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 283942006800 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 283942006801 binding surface 283942006802 TPR motif; other site 283942006803 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 283942006804 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 283942006805 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 283942006806 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 283942006807 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 283942006808 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 283942006809 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 283942006810 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 283942006811 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942006812 ATP binding site [chemical binding]; other site 283942006813 Mg2+ binding site [ion binding]; other site 283942006814 G-X-G motif; other site 283942006815 recombination associated protein; Reviewed; Region: rdgC; PRK00321 283942006816 HDOD domain; Region: HDOD; pfam08668 283942006817 Nudix hydrolase homolog; Region: PLN02791 283942006818 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 283942006819 Low molecular weight phosphatase family; Region: LMWPc; cd00115 283942006820 active site 283942006821 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 283942006822 dimerization interface [polypeptide binding]; other site 283942006823 putative DNA binding site [nucleotide binding]; other site 283942006824 putative Zn2+ binding site [ion binding]; other site 283942006825 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 283942006826 Sodium Bile acid symporter family; Region: SBF; cl17470 283942006827 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 283942006828 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 283942006829 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 283942006830 Major Facilitator Superfamily; Region: MFS_1; pfam07690 283942006831 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 283942006832 Predicted flavoprotein [General function prediction only]; Region: COG0431 283942006833 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 283942006834 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 283942006835 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 283942006836 Sulfate transporter family; Region: Sulfate_transp; pfam00916 283942006837 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 283942006838 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 283942006839 Ligand Binding Site [chemical binding]; other site 283942006840 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 283942006841 Ligand Binding Site [chemical binding]; other site 283942006842 helicase 45; Provisional; Region: PTZ00424 283942006843 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 283942006844 ATP binding site [chemical binding]; other site 283942006845 putative Mg++ binding site [ion binding]; other site 283942006846 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 283942006847 nucleotide binding region [chemical binding]; other site 283942006848 ATP-binding site [chemical binding]; other site 283942006849 Predicted integral membrane protein [Function unknown]; Region: COG5652 283942006850 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 283942006851 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 283942006852 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 283942006853 Ligand Binding Site [chemical binding]; other site 283942006854 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 283942006855 active site residue [active] 283942006856 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 283942006857 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 283942006858 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 283942006859 ligand binding site [chemical binding]; other site 283942006860 flagellar motor protein PomA; Reviewed; Region: PRK08990 283942006861 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 283942006862 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 283942006863 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 283942006864 substrate binding pocket [chemical binding]; other site 283942006865 chain length determination region; other site 283942006866 substrate-Mg2+ binding site; other site 283942006867 catalytic residues [active] 283942006868 aspartate-rich region 1; other site 283942006869 active site lid residues [active] 283942006870 aspartate-rich region 2; other site 283942006871 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 283942006872 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 283942006873 TPP-binding site; other site 283942006874 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 283942006875 PYR/PP interface [polypeptide binding]; other site 283942006876 dimer interface [polypeptide binding]; other site 283942006877 TPP binding site [chemical binding]; other site 283942006878 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 283942006879 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 283942006880 tetramer interfaces [polypeptide binding]; other site 283942006881 binuclear metal-binding site [ion binding]; other site 283942006882 thiamine monophosphate kinase; Provisional; Region: PRK05731 283942006883 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 283942006884 ATP binding site [chemical binding]; other site 283942006885 dimerization interface [polypeptide binding]; other site 283942006886 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 283942006887 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 283942006888 homopentamer interface [polypeptide binding]; other site 283942006889 active site 283942006890 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 283942006891 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 283942006892 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 283942006893 putative acyl-acceptor binding pocket; other site 283942006894 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 283942006895 hypothetical protein; Validated; Region: PRK02101 283942006896 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 283942006897 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 283942006898 Protein export membrane protein; Region: SecD_SecF; pfam02355 283942006899 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 283942006900 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 283942006901 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 283942006902 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 283942006903 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 283942006904 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 283942006905 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 283942006906 Walker A motif; other site 283942006907 ATP binding site [chemical binding]; other site 283942006908 Walker B motif; other site 283942006909 arginine finger; other site 283942006910 Predicted membrane protein [Function unknown]; Region: COG2860 283942006911 UPF0126 domain; Region: UPF0126; pfam03458 283942006912 UPF0126 domain; Region: UPF0126; pfam03458 283942006913 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 283942006914 Na binding site [ion binding]; other site 283942006915 PAS fold; Region: PAS_7; pfam12860 283942006916 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 283942006917 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 283942006918 dimer interface [polypeptide binding]; other site 283942006919 phosphorylation site [posttranslational modification] 283942006920 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942006921 ATP binding site [chemical binding]; other site 283942006922 Mg2+ binding site [ion binding]; other site 283942006923 G-X-G motif; other site 283942006924 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 283942006925 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942006926 active site 283942006927 phosphorylation site [posttranslational modification] 283942006928 intermolecular recognition site; other site 283942006929 dimerization interface [polypeptide binding]; other site 283942006930 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 283942006931 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942006932 active site 283942006933 phosphorylation site [posttranslational modification] 283942006934 intermolecular recognition site; other site 283942006935 dimerization interface [polypeptide binding]; other site 283942006936 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 283942006937 DNA binding residues [nucleotide binding] 283942006938 dimerization interface [polypeptide binding]; other site 283942006939 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 283942006940 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 283942006941 N-terminal plug; other site 283942006942 ligand-binding site [chemical binding]; other site 283942006943 Citrate transporter; Region: CitMHS; pfam03600 283942006944 fructuronate transporter; Provisional; Region: PRK10034; cl15264 283942006945 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 283942006946 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 283942006947 dimer interface [polypeptide binding]; other site 283942006948 acyl-activating enzyme (AAE) consensus motif; other site 283942006949 putative active site [active] 283942006950 AMP binding site [chemical binding]; other site 283942006951 putative CoA binding site [chemical binding]; other site 283942006952 homoserine O-acetyltransferase; Provisional; Region: PRK06765 283942006953 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 283942006954 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 283942006955 TIGR03545 family protein; Region: TIGR03545 283942006956 TIGR03546 family protein; Region: TIGR03546 283942006957 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 283942006958 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 283942006959 ATP-grasp domain; Region: ATP-grasp_4; cl17255 283942006960 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 283942006961 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 283942006962 Coenzyme A binding pocket [chemical binding]; other site 283942006963 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 283942006964 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 283942006965 active site 283942006966 catalytic site [active] 283942006967 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 283942006968 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 283942006969 dimer interface [polypeptide binding]; other site 283942006970 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283942006971 catalytic residue [active] 283942006972 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 283942006973 Nitrogen regulatory protein P-II; Region: P-II; smart00938 283942006974 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 283942006975 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 283942006976 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 283942006977 S-adenosylmethionine binding site [chemical binding]; other site 283942006978 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 283942006979 Domain of unknown function DUF20; Region: UPF0118; pfam01594 283942006980 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942006981 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 283942006982 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 283942006983 PAS fold; Region: PAS_3; pfam08447 283942006984 putative active site [active] 283942006985 heme pocket [chemical binding]; other site 283942006986 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942006987 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942006988 metal binding site [ion binding]; metal-binding site 283942006989 active site 283942006990 I-site; other site 283942006991 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 283942006992 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 283942006993 putative active site pocket [active] 283942006994 dimerization interface [polypeptide binding]; other site 283942006995 putative catalytic residue [active] 283942006996 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 283942006997 Transposase; Region: DEDD_Tnp_IS110; pfam01548 283942006998 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 283942006999 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 283942007000 dimer interface [polypeptide binding]; other site 283942007001 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 283942007002 putative CheW interface [polypeptide binding]; other site 283942007003 Protein of unknown function (DUF962); Region: DUF962; cl01879 283942007004 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 283942007005 Mechanosensitive ion channel; Region: MS_channel; pfam00924 283942007006 PhoD-like phosphatase; Region: PhoD; pfam09423 283942007007 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 283942007008 putative active site [active] 283942007009 putative metal binding site [ion binding]; other site 283942007010 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 283942007011 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 283942007012 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 283942007013 N-terminal plug; other site 283942007014 ligand-binding site [chemical binding]; other site 283942007015 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 283942007016 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 283942007017 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 283942007018 kynureninase; Region: kynureninase; TIGR01814 283942007019 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 283942007020 catalytic residue [active] 283942007021 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 283942007022 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 283942007023 YcaO domain protein; Region: TIGR03549 283942007024 OsmC-like protein; Region: OsmC; pfam02566 283942007025 YcaO-like family; Region: YcaO; pfam02624 283942007026 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 283942007027 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 283942007028 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 283942007029 PEGA domain; Region: PEGA; pfam08308 283942007030 PEGA domain; Region: PEGA; pfam08308 283942007031 Uncharacterized conserved protein [Function unknown]; Region: COG1262 283942007032 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 283942007033 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 283942007034 TPR motif; other site 283942007035 binding surface 283942007036 Transcriptional regulator [Transcription]; Region: LysR; COG0583 283942007037 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 283942007038 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 283942007039 putative effector binding pocket; other site 283942007040 dimerization interface [polypeptide binding]; other site 283942007041 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 283942007042 EamA-like transporter family; Region: EamA; pfam00892 283942007043 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 283942007044 Transcriptional regulator [Transcription]; Region: LysR; COG0583 283942007045 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 283942007046 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 283942007047 substrate binding pocket [chemical binding]; other site 283942007048 dimerization interface [polypeptide binding]; other site 283942007049 Beta protein; Region: Beta_protein; pfam14350 283942007050 Domain of unknown function (DUF955); Region: DUF955; pfam06114 283942007051 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 283942007052 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 283942007053 ATP binding site [chemical binding]; other site 283942007054 G-X-G motif; other site 283942007055 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 283942007056 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 283942007057 active site 283942007058 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 283942007059 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 283942007060 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 283942007061 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 283942007062 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 283942007063 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 283942007064 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 283942007065 DNA binding residues [nucleotide binding] 283942007066 DNA primase; Validated; Region: dnaG; PRK05667 283942007067 CHC2 zinc finger; Region: zf-CHC2; pfam01807 283942007068 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 283942007069 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 283942007070 active site 283942007071 metal binding site [ion binding]; metal-binding site 283942007072 interdomain interaction site; other site 283942007073 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 283942007074 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 283942007075 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 283942007076 Tyrosine kinase, catalytic domain; Region: TyrKc; smart00219 283942007077 Catalytic domain of Protein Kinases; Region: PKc; cd00180 283942007078 active site 283942007079 ATP binding site [chemical binding]; other site 283942007080 substrate binding site [chemical binding]; other site 283942007081 activation loop (A-loop); other site 283942007082 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 283942007083 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 283942007084 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 283942007085 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 283942007086 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 283942007087 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 283942007088 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 283942007089 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 283942007090 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 283942007091 dimer interface [polypeptide binding]; other site 283942007092 putative CheW interface [polypeptide binding]; other site 283942007093 Protein of unknown function, DUF481; Region: DUF481; pfam04338 283942007094 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 283942007095 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 283942007096 intersubunit interface [polypeptide binding]; other site 283942007097 active site 283942007098 zinc binding site [ion binding]; other site 283942007099 Na+ binding site [ion binding]; other site 283942007100 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 283942007101 Phosphoglycerate kinase; Region: PGK; pfam00162 283942007102 substrate binding site [chemical binding]; other site 283942007103 hinge regions; other site 283942007104 ADP binding site [chemical binding]; other site 283942007105 catalytic site [active] 283942007106 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 283942007107 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 283942007108 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 283942007109 transketolase; Reviewed; Region: PRK12753 283942007110 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 283942007111 TPP-binding site [chemical binding]; other site 283942007112 dimer interface [polypeptide binding]; other site 283942007113 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 283942007114 PYR/PP interface [polypeptide binding]; other site 283942007115 dimer interface [polypeptide binding]; other site 283942007116 TPP binding site [chemical binding]; other site 283942007117 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 283942007118 S-adenosylmethionine synthetase; Validated; Region: PRK05250 283942007119 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 283942007120 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 283942007121 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 283942007122 RNA methyltransferase, RsmE family; Region: TIGR00046 283942007123 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 283942007124 glutathione synthetase; Provisional; Region: PRK05246 283942007125 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 283942007126 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 283942007127 hypothetical protein; Validated; Region: PRK00228 283942007128 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 283942007129 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 283942007130 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 283942007131 putative active site [active] 283942007132 PhoH-like protein; Region: PhoH; pfam02562 283942007133 ATP-dependent helicase HepA; Validated; Region: PRK04914 283942007134 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 283942007135 ATP binding site [chemical binding]; other site 283942007136 putative Mg++ binding site [ion binding]; other site 283942007137 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 283942007138 nucleotide binding region [chemical binding]; other site 283942007139 ATP-binding site [chemical binding]; other site 283942007140 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 283942007141 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 283942007142 active site 283942007143 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 283942007144 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 283942007145 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 283942007146 putative metal binding site [ion binding]; other site 283942007147 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 283942007148 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 283942007149 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 283942007150 Substrate binding site; other site 283942007151 metal-binding site 283942007152 Phosphotransferase enzyme family; Region: APH; pfam01636 283942007153 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 283942007154 substrate binding site [chemical binding]; other site 283942007155 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 283942007156 Organic solvent tolerance protein; Region: OstA_C; pfam04453 283942007157 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 283942007158 SurA N-terminal domain; Region: SurA_N; pfam09312 283942007159 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 283942007160 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 283942007161 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 283942007162 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 283942007163 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 283942007164 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 283942007165 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 283942007166 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 283942007167 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 283942007168 active site 283942007169 metal binding site [ion binding]; metal-binding site 283942007170 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 283942007171 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 283942007172 dimerization interface [polypeptide binding]; other site 283942007173 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 283942007174 dimer interface [polypeptide binding]; other site 283942007175 putative CheW interface [polypeptide binding]; other site 283942007176 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 283942007177 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 283942007178 active site 283942007179 HIGH motif; other site 283942007180 dimer interface [polypeptide binding]; other site 283942007181 KMSKS motif; other site 283942007182 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 283942007183 RNA binding surface [nucleotide binding]; other site 283942007184 putative peptidase; Provisional; Region: PRK11649 283942007185 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 283942007186 Peptidase family M23; Region: Peptidase_M23; pfam01551 283942007187 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 283942007188 proline dipeptidase; Provisional; Region: PRK13607 283942007189 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 283942007190 active site 283942007191 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 283942007192 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 283942007193 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 283942007194 Cl- selectivity filter; other site 283942007195 Cl- binding residues [ion binding]; other site 283942007196 pore gating glutamate residue; other site 283942007197 dimer interface [polypeptide binding]; other site 283942007198 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 283942007199 aspartate carbamoyltransferase; Provisional; Region: PRK08192 283942007200 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 283942007201 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 283942007202 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 283942007203 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 283942007204 inhibitor-cofactor binding pocket; inhibition site 283942007205 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283942007206 catalytic residue [active] 283942007207 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 283942007208 Transglycosylase; Region: Transgly; pfam00912 283942007209 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 283942007210 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 283942007211 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 283942007212 ATP binding site [chemical binding]; other site 283942007213 putative Mg++ binding site [ion binding]; other site 283942007214 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 283942007215 nucleotide binding region [chemical binding]; other site 283942007216 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 283942007217 aminopeptidase B; Provisional; Region: PRK05015 283942007218 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 283942007219 interface (dimer of trimers) [polypeptide binding]; other site 283942007220 Substrate-binding/catalytic site; other site 283942007221 Zn-binding sites [ion binding]; other site 283942007222 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 283942007223 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 283942007224 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 283942007225 active site 283942007226 HIGH motif; other site 283942007227 nucleotide binding site [chemical binding]; other site 283942007228 active site 283942007229 KMSKS motif; other site 283942007230 poly(A) polymerase; Region: pcnB; TIGR01942 283942007231 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 283942007232 active site 283942007233 NTP binding site [chemical binding]; other site 283942007234 metal binding triad [ion binding]; metal-binding site 283942007235 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 283942007236 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 283942007237 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 283942007238 catalytic center binding site [active] 283942007239 ATP binding site [chemical binding]; other site 283942007240 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 283942007241 oligomerization interface [polypeptide binding]; other site 283942007242 active site 283942007243 metal binding site [ion binding]; metal-binding site 283942007244 pantoate--beta-alanine ligase; Region: panC; TIGR00018 283942007245 Pantoate-beta-alanine ligase; Region: PanC; cd00560 283942007246 active site 283942007247 ATP-binding site [chemical binding]; other site 283942007248 pantoate-binding site; other site 283942007249 HXXH motif; other site 283942007250 putative pyridoxal-dependent aspartate 1-decarboxylase; Region: NOD_PanD_pyr; TIGR03799 283942007251 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 283942007252 catalytic residue [active] 283942007253 Putative methyltransferase; Region: Methyltransf_4; cl17290 283942007254 inner membrane transport permease; Provisional; Region: PRK15066 283942007255 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 283942007256 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 283942007257 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 283942007258 Walker A/P-loop; other site 283942007259 ATP binding site [chemical binding]; other site 283942007260 Q-loop/lid; other site 283942007261 ABC transporter signature motif; other site 283942007262 Walker B; other site 283942007263 D-loop; other site 283942007264 H-loop/switch region; other site 283942007265 aromatic acid decarboxylase; Validated; Region: PRK05920 283942007266 Flavoprotein; Region: Flavoprotein; pfam02441 283942007267 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 283942007268 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 283942007269 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 283942007270 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 283942007271 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 283942007272 AMP binding site [chemical binding]; other site 283942007273 metal binding site [ion binding]; metal-binding site 283942007274 active site 283942007275 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 283942007276 dimer interface [polypeptide binding]; other site 283942007277 substrate binding site [chemical binding]; other site 283942007278 metal binding sites [ion binding]; metal-binding site 283942007279 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 283942007280 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 283942007281 Walker A/P-loop; other site 283942007282 ATP binding site [chemical binding]; other site 283942007283 Q-loop/lid; other site 283942007284 ABC transporter signature motif; other site 283942007285 Walker B; other site 283942007286 D-loop; other site 283942007287 H-loop/switch region; other site 283942007288 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 283942007289 FtsX-like permease family; Region: FtsX; pfam02687 283942007290 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 283942007291 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 283942007292 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942007293 active site 283942007294 phosphorylation site [posttranslational modification] 283942007295 intermolecular recognition site; other site 283942007296 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 283942007297 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942007298 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942007299 metal binding site [ion binding]; metal-binding site 283942007300 active site 283942007301 I-site; other site 283942007302 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 283942007303 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 283942007304 Protein of unknown function (DUF461); Region: DUF461; pfam04314 283942007305 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 283942007306 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 283942007307 N-terminal plug; other site 283942007308 ligand-binding site [chemical binding]; other site 283942007309 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 283942007310 Transposase; Region: DEDD_Tnp_IS110; pfam01548 283942007311 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 283942007312 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 283942007313 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 283942007314 S-adenosylmethionine binding site [chemical binding]; other site 283942007315 MerC mercury resistance protein; Region: MerC; pfam03203 283942007316 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 283942007317 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 283942007318 motif 1; other site 283942007319 dimer interface [polypeptide binding]; other site 283942007320 active site 283942007321 motif 2; other site 283942007322 motif 3; other site 283942007323 elongation factor P; Validated; Region: PRK00529 283942007324 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 283942007325 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 283942007326 RNA binding site [nucleotide binding]; other site 283942007327 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 283942007328 RNA binding site [nucleotide binding]; other site 283942007329 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 283942007330 Radical SAM superfamily; Region: Radical_SAM; pfam04055 283942007331 FeS/SAM binding site; other site 283942007332 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 283942007333 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 283942007334 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 283942007335 ring oligomerisation interface [polypeptide binding]; other site 283942007336 ATP/Mg binding site [chemical binding]; other site 283942007337 stacking interactions; other site 283942007338 hinge regions; other site 283942007339 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 283942007340 oligomerisation interface [polypeptide binding]; other site 283942007341 mobile loop; other site 283942007342 roof hairpin; other site 283942007343 CutA1 divalent ion tolerance protein; Region: CutA1; pfam03091 283942007344 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 283942007345 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 283942007346 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 283942007347 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 283942007348 DsbD alpha interface [polypeptide binding]; other site 283942007349 catalytic residues [active] 283942007350 Dehydroquinase class II; Region: DHquinase_II; pfam01220 283942007351 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 283942007352 active site 283942007353 trimer interface [polypeptide binding]; other site 283942007354 dimer interface [polypeptide binding]; other site 283942007355 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 283942007356 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 283942007357 carboxyltransferase (CT) interaction site; other site 283942007358 biotinylation site [posttranslational modification]; other site 283942007359 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 283942007360 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 283942007361 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 283942007362 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 283942007363 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 283942007364 DNA methylase; Region: N6_N4_Mtase; cl17433 283942007365 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 283942007366 S-adenosylmethionine binding site [chemical binding]; other site 283942007367 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 283942007368 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 283942007369 FMN binding site [chemical binding]; other site 283942007370 active site 283942007371 catalytic residues [active] 283942007372 substrate binding site [chemical binding]; other site 283942007373 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 283942007374 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 283942007375 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 283942007376 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 283942007377 purine monophosphate binding site [chemical binding]; other site 283942007378 dimer interface [polypeptide binding]; other site 283942007379 putative catalytic residues [active] 283942007380 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 283942007381 Predicted methyltransferase [General function prediction only]; Region: COG4798 283942007382 Methyltransferase domain; Region: Methyltransf_23; pfam13489 283942007383 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 283942007384 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 283942007385 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 283942007386 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 283942007387 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 283942007388 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 283942007389 FOG: CBS domain [General function prediction only]; Region: COG0517 283942007390 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942007391 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942007392 metal binding site [ion binding]; metal-binding site 283942007393 active site 283942007394 I-site; other site 283942007395 hypothetical protein; Provisional; Region: PRK11027 283942007396 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 283942007397 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 283942007398 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 283942007399 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 283942007400 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 283942007401 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 283942007402 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 283942007403 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 283942007404 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 283942007405 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 283942007406 putative active site [active] 283942007407 Zn binding site [ion binding]; other site 283942007408 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 283942007409 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 283942007410 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 283942007411 catalytic site [active] 283942007412 putative active site [active] 283942007413 putative substrate binding site [chemical binding]; other site 283942007414 dimer interface [polypeptide binding]; other site 283942007415 GTPase RsgA; Reviewed; Region: PRK12288 283942007416 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 283942007417 RNA binding site [nucleotide binding]; other site 283942007418 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 283942007419 GTPase/Zn-binding domain interface [polypeptide binding]; other site 283942007420 GTP/Mg2+ binding site [chemical binding]; other site 283942007421 G4 box; other site 283942007422 G5 box; other site 283942007423 G1 box; other site 283942007424 Switch I region; other site 283942007425 G2 box; other site 283942007426 G3 box; other site 283942007427 Switch II region; other site 283942007428 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 283942007429 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 283942007430 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 283942007431 active site 283942007432 catalytic site [active] 283942007433 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 283942007434 Protein export membrane protein; Region: SecD_SecF; cl14618 283942007435 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 283942007436 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 283942007437 HlyD family secretion protein; Region: HlyD_3; pfam13437 283942007438 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 283942007439 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 283942007440 substrate binding site [chemical binding]; other site 283942007441 active site 283942007442 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 283942007443 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 283942007444 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 283942007445 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 283942007446 putative NADH binding site [chemical binding]; other site 283942007447 putative active site [active] 283942007448 nudix motif; other site 283942007449 putative metal binding site [ion binding]; other site 283942007450 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; pfam04353 283942007451 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 283942007452 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 283942007453 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 283942007454 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 283942007455 FOG: WD40 repeat [General function prediction only]; Region: COG2319 283942007456 structural tetrad; other site 283942007457 SlyX; Region: SlyX; pfam04102 283942007458 phosphoribulokinase; Provisional; Region: PRK15453 283942007459 active site 283942007460 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 283942007461 OsmC-like protein; Region: OsmC; cl00767 283942007462 Protein of unknown function (DUF3802); Region: DUF3802; pfam12290 283942007463 succinylglutamic semialdehyde dehydrogenase; Region: arg_catab_astD; TIGR03240 283942007464 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 283942007465 NAD(P) binding site [chemical binding]; other site 283942007466 catalytic residues [active] 283942007467 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 283942007468 arginine N-succinyltransferase; Region: arg_catab_AstA; TIGR03244 283942007469 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 283942007470 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 283942007471 inhibitor-cofactor binding pocket; inhibition site 283942007472 pyridoxal 5'-phosphate binding site [chemical binding]; other site 283942007473 catalytic residue [active] 283942007474 Flagellar protein YcgR; Region: YcgR_2; pfam12945 283942007475 PilZ domain; Region: PilZ; pfam07238 283942007476 HDOD domain; Region: HDOD; pfam08668 283942007477 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 283942007478 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 283942007479 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 283942007480 glutamine binding [chemical binding]; other site 283942007481 catalytic triad [active] 283942007482 PAS domain; Region: PAS_9; pfam13426 283942007483 PAS domain S-box; Region: sensory_box; TIGR00229 283942007484 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 283942007485 putative active site [active] 283942007486 heme pocket [chemical binding]; other site 283942007487 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942007488 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942007489 metal binding site [ion binding]; metal-binding site 283942007490 active site 283942007491 I-site; other site 283942007492 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 283942007493 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 283942007494 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 283942007495 active site 283942007496 HIGH motif; other site 283942007497 dimer interface [polypeptide binding]; other site 283942007498 KMSKS motif; other site 283942007499 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 283942007500 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 283942007501 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 283942007502 substrate binding site [chemical binding]; other site 283942007503 hexamer interface [polypeptide binding]; other site 283942007504 metal binding site [ion binding]; metal-binding site 283942007505 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 283942007506 oligopeptidase A; Provisional; Region: PRK10911 283942007507 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 283942007508 active site 283942007509 Zn binding site [ion binding]; other site 283942007510 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 283942007511 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 283942007512 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 283942007513 glutathione reductase; Validated; Region: PRK06116 283942007514 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 283942007515 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 283942007516 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 283942007517 Pirin-related protein [General function prediction only]; Region: COG1741 283942007518 Pirin; Region: Pirin; pfam02678 283942007519 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 283942007520 hypothetical protein; Provisional; Region: PRK02237 283942007521 protease3; Provisional; Region: PRK15101 283942007522 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 283942007523 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 283942007524 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 283942007525 Peptidase family M1; Region: Peptidase_M1; pfam01433 283942007526 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 283942007527 Zn binding site [ion binding]; other site 283942007528 glutamate dehydrogenase; Provisional; Region: PRK09414 283942007529 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 283942007530 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 283942007531 NAD(P) binding site [chemical binding]; other site 283942007532 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 283942007533 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 283942007534 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942007535 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942007536 metal binding site [ion binding]; metal-binding site 283942007537 active site 283942007538 I-site; other site 283942007539 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 283942007540 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 283942007541 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 283942007542 dimer interface [polypeptide binding]; other site 283942007543 decamer (pentamer of dimers) interface [polypeptide binding]; other site 283942007544 catalytic triad [active] 283942007545 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 283942007546 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 283942007547 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 283942007548 dimerization interface [polypeptide binding]; other site 283942007549 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 283942007550 dimer interface [polypeptide binding]; other site 283942007551 putative CheW interface [polypeptide binding]; other site 283942007552 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 283942007553 GAF domain; Region: GAF; pfam01590 283942007554 PAS domain S-box; Region: sensory_box; TIGR00229 283942007555 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 283942007556 putative active site [active] 283942007557 heme pocket [chemical binding]; other site 283942007558 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942007559 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942007560 metal binding site [ion binding]; metal-binding site 283942007561 active site 283942007562 I-site; other site 283942007563 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 283942007564 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 283942007565 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 283942007566 catalytic motif [active] 283942007567 Catalytic residue [active] 283942007568 ferrochelatase; Reviewed; Region: hemH; PRK00035 283942007569 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 283942007570 C-terminal domain interface [polypeptide binding]; other site 283942007571 active site 283942007572 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 283942007573 active site 283942007574 N-terminal domain interface [polypeptide binding]; other site 283942007575 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 283942007576 Domain of unknown function DUF21; Region: DUF21; pfam01595 283942007577 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 283942007578 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 283942007579 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 283942007580 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 283942007581 active site residue [active] 283942007582 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 283942007583 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 283942007584 dimerization interface [polypeptide binding]; other site 283942007585 DPS ferroxidase diiron center [ion binding]; other site 283942007586 ion pore; other site 283942007587 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 283942007588 Phosphotransferase enzyme family; Region: APH; pfam01636 283942007589 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 283942007590 active site 283942007591 substrate binding site [chemical binding]; other site 283942007592 ATP binding site [chemical binding]; other site 283942007593 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 283942007594 Domain of unknown function DUF77; Region: DUF77; cl00307 283942007595 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 283942007596 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 283942007597 FMN reductase; Validated; Region: fre; PRK08051 283942007598 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 283942007599 FAD binding pocket [chemical binding]; other site 283942007600 FAD binding motif [chemical binding]; other site 283942007601 phosphate binding motif [ion binding]; other site 283942007602 beta-alpha-beta structure motif; other site 283942007603 NAD binding pocket [chemical binding]; other site 283942007604 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 283942007605 transcription termination factor Rho; Provisional; Region: rho; PRK09376 283942007606 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 283942007607 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 283942007608 RNA binding site [nucleotide binding]; other site 283942007609 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 283942007610 multimer interface [polypeptide binding]; other site 283942007611 Walker A motif; other site 283942007612 ATP binding site [chemical binding]; other site 283942007613 Walker B motif; other site 283942007614 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 283942007615 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 283942007616 catalytic residues [active] 283942007617 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 283942007618 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 283942007619 ATP binding site [chemical binding]; other site 283942007620 Mg++ binding site [ion binding]; other site 283942007621 motif III; other site 283942007622 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 283942007623 nucleotide binding region [chemical binding]; other site 283942007624 ATP-binding site [chemical binding]; other site 283942007625 exopolyphosphatase; Region: exo_poly_only; TIGR03706 283942007626 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 283942007627 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 283942007628 dimer interface [polypeptide binding]; other site 283942007629 active site 283942007630 aspartate-rich active site metal binding site; other site 283942007631 allosteric magnesium binding site [ion binding]; other site 283942007632 Schiff base residues; other site 283942007633 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 283942007634 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 283942007635 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 283942007636 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942007637 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942007638 metal binding site [ion binding]; metal-binding site 283942007639 active site 283942007640 I-site; other site 283942007641 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 283942007642 active site 283942007643 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 283942007644 sec-independent translocase; Provisional; Region: PRK01770 283942007645 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 283942007646 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 283942007647 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 283942007648 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 283942007649 SCP-2 sterol transfer family; Region: SCP2; pfam02036 283942007650 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 283942007651 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 283942007652 S-adenosylmethionine binding site [chemical binding]; other site 283942007653 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 283942007654 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 283942007655 ssDNA binding site; other site 283942007656 generic binding surface II; other site 283942007657 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 283942007658 ATP binding site [chemical binding]; other site 283942007659 putative Mg++ binding site [ion binding]; other site 283942007660 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 283942007661 nucleotide binding region [chemical binding]; other site 283942007662 ATP-binding site [chemical binding]; other site 283942007663 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 283942007664 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 283942007665 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 283942007666 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 283942007667 EAL domain; Region: EAL; pfam00563 283942007668 Predicted amidohydrolase [General function prediction only]; Region: COG0388 283942007669 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 283942007670 putative active site [active] 283942007671 catalytic triad [active] 283942007672 putative dimer interface [polypeptide binding]; other site 283942007673 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 283942007674 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 283942007675 homotrimer interaction site [polypeptide binding]; other site 283942007676 putative active site [active] 283942007677 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 283942007678 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 283942007679 Zn2+ binding site [ion binding]; other site 283942007680 Mg2+ binding site [ion binding]; other site 283942007681 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 283942007682 synthetase active site [active] 283942007683 NTP binding site [chemical binding]; other site 283942007684 metal binding site [ion binding]; metal-binding site 283942007685 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 283942007686 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 283942007687 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 283942007688 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 283942007689 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 283942007690 catalytic site [active] 283942007691 G-X2-G-X-G-K; other site 283942007692 putative cyanate transporter; Provisional; Region: cynX; PRK09705 283942007693 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 283942007694 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 283942007695 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 283942007696 PAS fold; Region: PAS; pfam00989 283942007697 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 283942007698 putative active site [active] 283942007699 heme pocket [chemical binding]; other site 283942007700 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 283942007701 acyl-activating enzyme (AAE) consensus motif; other site 283942007702 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 283942007703 AMP binding site [chemical binding]; other site 283942007704 active site 283942007705 acyl-activating enzyme (AAE) consensus motif; other site 283942007706 CoA binding site [chemical binding]; other site 283942007707 PAS domain S-box; Region: sensory_box; TIGR00229 283942007708 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 283942007709 putative active site [active] 283942007710 heme pocket [chemical binding]; other site 283942007711 PAS fold; Region: PAS_3; pfam08447 283942007712 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942007713 metal binding site [ion binding]; metal-binding site 283942007714 active site 283942007715 I-site; other site 283942007716 BCCT family transporter; Region: BCCT; pfam02028 283942007717 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 283942007718 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 283942007719 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 283942007720 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 283942007721 active site 283942007722 Transcriptional regulator; Region: Rrf2; cl17282 283942007723 Rrf2 family protein; Region: rrf2_super; TIGR00738 283942007724 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 283942007725 Predicted membrane protein [Function unknown]; Region: COG3650 283942007726 META domain; Region: META; pfam03724 283942007727 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 283942007728 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 283942007729 N-terminal plug; other site 283942007730 ligand-binding site [chemical binding]; other site 283942007731 ATP-grasp domain; Region: ATP-grasp_4; cl17255 283942007732 amino acid transporter; Region: 2A0306; TIGR00909 283942007733 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 283942007734 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 283942007735 transmembrane helices; other site 283942007736 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 283942007737 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 283942007738 PhnA protein; Region: PhnA; pfam03831 283942007739 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 283942007740 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 283942007741 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 283942007742 poly-gamma-glutamate synthase PgsB/CapB; Region: poly_gGlu_PgsB; TIGR04012 283942007743 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 283942007744 Capsule biosynthesis CapC; Region: Caps_synth_CapC; cl14855 283942007745 poly-gamma-glutamate system protein; Region: gamma_Glu_sys; TIGR04332 283942007746 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 283942007747 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 283942007748 HlyD family secretion protein; Region: HlyD_3; pfam13437 283942007749 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 283942007750 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 283942007751 Walker A/P-loop; other site 283942007752 ATP binding site [chemical binding]; other site 283942007753 Q-loop/lid; other site 283942007754 ABC transporter signature motif; other site 283942007755 Walker B; other site 283942007756 D-loop; other site 283942007757 H-loop/switch region; other site 283942007758 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 283942007759 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 283942007760 Walker A/P-loop; other site 283942007761 ATP binding site [chemical binding]; other site 283942007762 Q-loop/lid; other site 283942007763 ABC transporter signature motif; other site 283942007764 Walker B; other site 283942007765 D-loop; other site 283942007766 H-loop/switch region; other site 283942007767 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 283942007768 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 283942007769 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 283942007770 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 283942007771 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 283942007772 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 283942007773 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 283942007774 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 283942007775 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 283942007776 Coenzyme A binding pocket [chemical binding]; other site 283942007777 Major Facilitator Superfamily; Region: MFS_1; pfam07690 283942007778 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 283942007779 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 283942007780 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 283942007781 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 283942007782 PAS domain S-box; Region: sensory_box; TIGR00229 283942007783 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 283942007784 putative active site [active] 283942007785 heme pocket [chemical binding]; other site 283942007786 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942007787 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942007788 metal binding site [ion binding]; metal-binding site 283942007789 active site 283942007790 I-site; other site 283942007791 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 283942007792 Fic family protein [Function unknown]; Region: COG3177 283942007793 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 283942007794 Fic/DOC family; Region: Fic; pfam02661 283942007795 Lysine efflux permease [General function prediction only]; Region: COG1279 283942007796 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 283942007797 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 283942007798 non-specific DNA binding site [nucleotide binding]; other site 283942007799 salt bridge; other site 283942007800 sequence-specific DNA binding site [nucleotide binding]; other site 283942007801 Cupin domain; Region: Cupin_2; pfam07883 283942007802 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 283942007803 active site 283942007804 catalytic site [active] 283942007805 substrate binding site [chemical binding]; other site 283942007806 hypothetical protein; Provisional; Region: PRK11820 283942007807 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 283942007808 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 283942007809 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 283942007810 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 283942007811 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 283942007812 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 283942007813 DNA binding residues [nucleotide binding] 283942007814 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 283942007815 Smr domain; Region: Smr; pfam01713 283942007816 ribonuclease PH; Reviewed; Region: rph; PRK00173 283942007817 Ribonuclease PH; Region: RNase_PH_bact; cd11362 283942007818 hexamer interface [polypeptide binding]; other site 283942007819 active site 283942007820 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 283942007821 active site 283942007822 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 283942007823 Transposase; Region: DEDD_Tnp_IS110; pfam01548 283942007824 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 283942007825 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 283942007826 proposed catalytic triad [active] 283942007827 active site nucleophile [active] 283942007828 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 283942007829 Cation efflux family; Region: Cation_efflux; cl00316 283942007830 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 283942007831 lysophospholipase L2; Provisional; Region: PRK10749 283942007832 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 283942007833 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 283942007834 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 283942007835 dimerization interface [polypeptide binding]; other site 283942007836 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 283942007837 dimer interface [polypeptide binding]; other site 283942007838 phosphorylation site [posttranslational modification] 283942007839 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942007840 ATP binding site [chemical binding]; other site 283942007841 Mg2+ binding site [ion binding]; other site 283942007842 G-X-G motif; other site 283942007843 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 283942007844 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942007845 active site 283942007846 phosphorylation site [posttranslational modification] 283942007847 intermolecular recognition site; other site 283942007848 dimerization interface [polypeptide binding]; other site 283942007849 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 283942007850 DNA binding site [nucleotide binding] 283942007851 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 283942007852 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942007853 active site 283942007854 phosphorylation site [posttranslational modification] 283942007855 intermolecular recognition site; other site 283942007856 dimerization interface [polypeptide binding]; other site 283942007857 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 283942007858 Walker A motif; other site 283942007859 ATP binding site [chemical binding]; other site 283942007860 Walker B motif; other site 283942007861 arginine finger; other site 283942007862 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 283942007863 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 283942007864 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 283942007865 dimer interface [polypeptide binding]; other site 283942007866 phosphorylation site [posttranslational modification] 283942007867 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942007868 ATP binding site [chemical binding]; other site 283942007869 Mg2+ binding site [ion binding]; other site 283942007870 G-X-G motif; other site 283942007871 glutamine synthetase; Provisional; Region: glnA; PRK09469 283942007872 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 283942007873 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 283942007874 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 283942007875 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 283942007876 G1 box; other site 283942007877 putative GEF interaction site [polypeptide binding]; other site 283942007878 GTP/Mg2+ binding site [chemical binding]; other site 283942007879 Switch I region; other site 283942007880 G2 box; other site 283942007881 G3 box; other site 283942007882 Switch II region; other site 283942007883 G4 box; other site 283942007884 G5 box; other site 283942007885 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 283942007886 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 283942007887 Haemolysin-III related; Region: HlyIII; cl03831 283942007888 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 283942007889 Protein of unknown function (DUF3081); Region: DUF3081; pfam11280 283942007890 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 283942007891 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 283942007892 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 283942007893 MgtC family; Region: MgtC; pfam02308 283942007894 Predicted flavoprotein [General function prediction only]; Region: COG0431 283942007895 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 283942007896 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 283942007897 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 283942007898 NADP binding site [chemical binding]; other site 283942007899 C factor cell-cell signaling protein; Provisional; Region: PRK09009 283942007900 homodimer interface [polypeptide binding]; other site 283942007901 active site 283942007902 hypothetical protein; Reviewed; Region: PRK01637 283942007903 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 283942007904 putative active site [active] 283942007905 dimerization interface [polypeptide binding]; other site 283942007906 putative tRNAtyr binding site [nucleotide binding]; other site 283942007907 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 283942007908 Coenzyme A binding pocket [chemical binding]; other site 283942007909 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 283942007910 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 283942007911 active sites [active] 283942007912 tetramer interface [polypeptide binding]; other site 283942007913 urocanate hydratase; Provisional; Region: PRK05414 283942007914 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 283942007915 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 283942007916 DNA-binding site [nucleotide binding]; DNA binding site 283942007917 UTRA domain; Region: UTRA; pfam07702 283942007918 imidazolonepropionase; Validated; Region: PRK09356 283942007919 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 283942007920 active site 283942007921 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 283942007922 putative active site [active] 283942007923 putative metal binding site [ion binding]; other site 283942007924 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 283942007925 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942007926 metal binding site [ion binding]; metal-binding site 283942007927 active site 283942007928 I-site; other site 283942007929 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 283942007930 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 283942007931 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 283942007932 Walker A motif; other site 283942007933 ATP binding site [chemical binding]; other site 283942007934 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 283942007935 Walker B motif; other site 283942007936 arginine finger; other site 283942007937 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 283942007938 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 283942007939 active site 283942007940 HslU subunit interaction site [polypeptide binding]; other site 283942007941 Sporulation related domain; Region: SPOR; pfam05036 283942007942 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 283942007943 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 283942007944 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 283942007945 active site 283942007946 HIGH motif; other site 283942007947 KMSK motif region; other site 283942007948 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 283942007949 tRNA binding surface [nucleotide binding]; other site 283942007950 anticodon binding site; other site 283942007951 primosome assembly protein PriA; Validated; Region: PRK05580 283942007952 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 283942007953 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 283942007954 ATP binding site [chemical binding]; other site 283942007955 putative Mg++ binding site [ion binding]; other site 283942007956 helicase superfamily c-terminal domain; Region: HELICc; smart00490 283942007957 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 283942007958 Malic enzyme, N-terminal domain; Region: malic; pfam00390 283942007959 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 283942007960 putative NAD(P) binding site [chemical binding]; other site 283942007961 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 283942007962 Transposase; Region: DEDD_Tnp_IS110; pfam01548 283942007963 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 283942007964 transcriptional repressor protein MetJ; Provisional; Region: PRK05264 283942007965 dimerization interface [polypeptide binding]; other site 283942007966 DNA binding site [nucleotide binding] 283942007967 corepressor binding sites; other site 283942007968 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 283942007969 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 283942007970 putative catalytic residues [active] 283942007971 putative nucleotide binding site [chemical binding]; other site 283942007972 putative aspartate binding site [chemical binding]; other site 283942007973 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 283942007974 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 283942007975 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 283942007976 Transglycosylase; Region: Transgly; pfam00912 283942007977 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 283942007978 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 283942007979 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 283942007980 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 283942007981 shikimate kinase; Reviewed; Region: aroK; PRK00131 283942007982 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 283942007983 ADP binding site [chemical binding]; other site 283942007984 magnesium binding site [ion binding]; other site 283942007985 putative shikimate binding site; other site 283942007986 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 283942007987 active site 283942007988 dimer interface [polypeptide binding]; other site 283942007989 metal binding site [ion binding]; metal-binding site 283942007990 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 283942007991 AAA domain; Region: AAA_22; pfam13401 283942007992 Walker A motif; other site 283942007993 ATP binding site [chemical binding]; other site 283942007994 Walker B motif; other site 283942007995 cell division protein DamX; Validated; Region: PRK10905 283942007996 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 283942007997 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 283942007998 Coenzyme A binding pocket [chemical binding]; other site 283942007999 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 283942008000 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 283942008001 catalytic triad [active] 283942008002 dimer interface [polypeptide binding]; other site 283942008003 Predicted flavoproteins [General function prediction only]; Region: COG2081 283942008004 hydroxyglutarate oxidase; Provisional; Region: PRK11728 283942008005 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 283942008006 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 283942008007 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 283942008008 AsnC family; Region: AsnC_trans_reg; pfam01037 283942008009 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 283942008010 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 283942008011 putative substrate translocation pore; other site 283942008012 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 283942008013 Amidohydrolase; Region: Amidohydro_5; pfam13594 283942008014 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 283942008015 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 283942008016 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 283942008017 Helix-turn-helix domain; Region: HTH_18; pfam12833 283942008018 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 283942008019 Uncharacterized conserved protein [Function unknown]; Region: COG2128 283942008020 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 283942008021 PAS fold; Region: PAS_4; pfam08448 283942008022 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 283942008023 putative active site [active] 283942008024 heme pocket [chemical binding]; other site 283942008025 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 283942008026 GAF domain; Region: GAF; pfam01590 283942008027 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942008028 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942008029 metal binding site [ion binding]; metal-binding site 283942008030 active site 283942008031 I-site; other site 283942008032 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 283942008033 N-terminal plug; other site 283942008034 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 283942008035 ligand-binding site [chemical binding]; other site 283942008036 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 283942008037 dimerization interface [polypeptide binding]; other site 283942008038 substrate binding site [chemical binding]; other site 283942008039 active site 283942008040 calcium binding site [ion binding]; other site 283942008041 enterobactin receptor protein; Provisional; Region: PRK13483 283942008042 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 283942008043 N-terminal plug; other site 283942008044 ligand-binding site [chemical binding]; other site 283942008045 Transcriptional regulator [Transcription]; Region: LysR; COG0583 283942008046 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 283942008047 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 283942008048 putative effector binding pocket; other site 283942008049 dimerization interface [polypeptide binding]; other site 283942008050 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 283942008051 NADH(P)-binding; Region: NAD_binding_10; pfam13460 283942008052 NAD(P) binding site [chemical binding]; other site 283942008053 putative active site [active] 283942008054 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 283942008055 DNA-binding site [nucleotide binding]; DNA binding site 283942008056 RNA-binding motif; other site 283942008057 PAS fold; Region: PAS_4; pfam08448 283942008058 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 283942008059 putative active site [active] 283942008060 heme pocket [chemical binding]; other site 283942008061 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 283942008062 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 283942008063 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942008064 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942008065 metal binding site [ion binding]; metal-binding site 283942008066 active site 283942008067 I-site; other site 283942008068 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 283942008069 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 283942008070 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 283942008071 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 283942008072 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 283942008073 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 283942008074 putative uracil binding site [chemical binding]; other site 283942008075 putative active site [active] 283942008076 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 283942008077 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 283942008078 active site 283942008079 nucleophile elbow; other site 283942008080 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 283942008081 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 283942008082 FAD binding pocket [chemical binding]; other site 283942008083 FAD binding motif [chemical binding]; other site 283942008084 phosphate binding motif [ion binding]; other site 283942008085 beta-alpha-beta structure motif; other site 283942008086 NAD binding pocket [chemical binding]; other site 283942008087 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 283942008088 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 283942008089 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 283942008090 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 283942008091 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 283942008092 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 283942008093 transmembrane helices; other site 283942008094 TrkA-C domain; Region: TrkA_C; pfam02080 283942008095 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 283942008096 TrkA-C domain; Region: TrkA_C; pfam02080 283942008097 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 283942008098 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 283942008099 Protein of unknown function, DUF482; Region: DUF482; pfam04339 283942008100 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 283942008101 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 283942008102 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 283942008103 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 283942008104 S-adenosylmethionine binding site [chemical binding]; other site 283942008105 Peptidase S46; Region: Peptidase_S46; pfam10459 283942008106 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 283942008107 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 283942008108 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 283942008109 N-terminal plug; other site 283942008110 ligand-binding site [chemical binding]; other site 283942008111 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 283942008112 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 283942008113 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 283942008114 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 283942008115 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 283942008116 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 283942008117 N-terminal plug; other site 283942008118 ligand-binding site [chemical binding]; other site 283942008119 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 283942008120 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 283942008121 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 283942008122 oligomeric interface; other site 283942008123 putative active site [active] 283942008124 homodimer interface [polypeptide binding]; other site 283942008125 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 283942008126 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 283942008127 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 283942008128 Zn2+ binding site [ion binding]; other site 283942008129 Mg2+ binding site [ion binding]; other site 283942008130 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 283942008131 Plasmid maintenance system killer protein [General function prediction only]; Region: HigB; COG3549 283942008132 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 283942008133 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 283942008134 sequence-specific DNA binding site [nucleotide binding]; other site 283942008135 salt bridge; other site 283942008136 putative toxin YafO; Provisional; Region: PRK09885 283942008137 putative antitoxin of the YafO-YafN toxin-antitoxin system; Provisional; Region: PRK09778 283942008138 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 283942008139 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 283942008140 additional DNA contacts [nucleotide binding]; other site 283942008141 mismatch recognition site; other site 283942008142 active site 283942008143 zinc binding site [ion binding]; other site 283942008144 DNA intercalation site [nucleotide binding]; other site 283942008145 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 283942008146 non-specific DNA binding site [nucleotide binding]; other site 283942008147 salt bridge; other site 283942008148 sequence-specific DNA binding site [nucleotide binding]; other site 283942008149 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 283942008150 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 283942008151 cofactor binding site; other site 283942008152 DNA binding site [nucleotide binding] 283942008153 substrate interaction site [chemical binding]; other site 283942008154 Restriction endonuclease MspI; Region: Endonuc-MspI; pfam09208 283942008155 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 283942008156 AAA domain; Region: AAA_30; pfam13604 283942008157 Family description; Region: UvrD_C_2; pfam13538 283942008158 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 283942008159 Part of AAA domain; Region: AAA_19; pfam13245 283942008160 Family description; Region: UvrD_C_2; pfam13538 283942008161 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 283942008162 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 283942008163 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 283942008164 active site 283942008165 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 283942008166 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 283942008167 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 283942008168 GAF domain; Region: GAF; pfam01590 283942008169 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942008170 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942008171 metal binding site [ion binding]; metal-binding site 283942008172 active site 283942008173 I-site; other site 283942008174 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 283942008175 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 283942008176 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 283942008177 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 283942008178 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 283942008179 catalytic residue [active] 283942008180 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 283942008181 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 283942008182 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 283942008183 Walker A/P-loop; other site 283942008184 ATP binding site [chemical binding]; other site 283942008185 Q-loop/lid; other site 283942008186 ABC transporter signature motif; other site 283942008187 Walker B; other site 283942008188 D-loop; other site 283942008189 H-loop/switch region; other site 283942008190 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 283942008191 Mechanosensitive ion channel; Region: MS_channel; pfam00924 283942008192 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 283942008193 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 283942008194 putative dimer interface [polypeptide binding]; other site 283942008195 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 283942008196 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 283942008197 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 283942008198 metal binding site [ion binding]; metal-binding site 283942008199 active site 283942008200 I-site; other site 283942008201 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 283942008202 Protein of unknown function (DUF3630); Region: DUF3630; pfam12305 283942008203 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 283942008204 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 283942008205 ATP binding site [chemical binding]; other site 283942008206 putative Mg++ binding site [ion binding]; other site 283942008207 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 283942008208 nucleotide binding region [chemical binding]; other site 283942008209 ATP-binding site [chemical binding]; other site 283942008210 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 283942008211 HRDC domain; Region: HRDC; pfam00570 283942008212 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 283942008213 CoenzymeA binding site [chemical binding]; other site 283942008214 subunit interaction site [polypeptide binding]; other site 283942008215 PHB binding site; other site 283942008216 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 283942008217 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 283942008218 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 283942008219 Part of AAA domain; Region: AAA_19; pfam13245 283942008220 Family description; Region: UvrD_C_2; pfam13538 283942008221 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 283942008222 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 283942008223 motif II; other site 283942008224 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 283942008225 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 283942008226 active site 283942008227 DNA binding site [nucleotide binding] 283942008228 Int/Topo IB signature motif; other site 283942008229 Protein of unknown function, DUF484; Region: DUF484; cl17449 283942008230 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 283942008231 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 283942008232 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 283942008233 diaminopimelate decarboxylase; Region: lysA; TIGR01048 283942008234 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 283942008235 active site 283942008236 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 283942008237 substrate binding site [chemical binding]; other site 283942008238 catalytic residues [active] 283942008239 dimer interface [polypeptide binding]; other site 283942008240 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 283942008241 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 283942008242 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 283942008243 domain interfaces; other site 283942008244 active site 283942008245 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 283942008246 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 283942008247 active site 283942008248 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 283942008249 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 283942008250 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 283942008251 TPR motif; other site 283942008252 binding surface 283942008253 hypothetical protein; Provisional; Region: PRK03757 283942008254 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 283942008255 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 283942008256 Transposase; Region: DEDD_Tnp_IS110; pfam01548 283942008257 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 283942008258 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 283942008259 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 283942008260 trimer interface [polypeptide binding]; other site 283942008261 putative metal binding site [ion binding]; other site 283942008262 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 283942008263 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 283942008264 putative active site [active] 283942008265 putative PHP Thumb interface [polypeptide binding]; other site 283942008266 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 283942008267 generic binding surface II; other site 283942008268 generic binding surface I; other site 283942008269 DNA Polymerase Y-family; Region: PolY_like; cd03468 283942008270 active site 283942008271 DNA binding site [nucleotide binding] 283942008272 Cell division inhibitor SulA; Region: SulA; cl01880 283942008273 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 283942008274 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 283942008275 putative acyl-acceptor binding pocket; other site 283942008276 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 283942008277 Mechanosensitive ion channel; Region: MS_channel; pfam00924 283942008278 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 283942008279 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 283942008280 catalytic residues [active] 283942008281 hinge region; other site 283942008282 alpha helical domain; other site 283942008283 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 283942008284 serine/threonine protein kinase; Provisional; Region: PRK11768 283942008285 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 283942008286 4Fe-4S binding domain; Region: Fer4_5; pfam12801 283942008287 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 283942008288 allantoate amidohydrolase; Reviewed; Region: PRK09290 283942008289 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 283942008290 active site 283942008291 metal binding site [ion binding]; metal-binding site 283942008292 dimer interface [polypeptide binding]; other site 283942008293 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 283942008294 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 283942008295 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 283942008296 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 283942008297 dimer interface [polypeptide binding]; other site 283942008298 decamer (pentamer of dimers) interface [polypeptide binding]; other site 283942008299 catalytic triad [active] 283942008300 peroxidatic and resolving cysteines [active] 283942008301 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 283942008302 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 283942008303 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 283942008304 dimerization interface [polypeptide binding]; other site 283942008305 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 283942008306 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 283942008307 active site 283942008308 FMN binding site [chemical binding]; other site 283942008309 substrate binding site [chemical binding]; other site 283942008310 3Fe-4S cluster binding site [ion binding]; other site 283942008311 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 283942008312 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 283942008313 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 283942008314 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 283942008315 N-terminal plug; other site 283942008316 ligand-binding site [chemical binding]; other site 283942008317 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 283942008318 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 283942008319 potential catalytic triad [active] 283942008320 conserved cys residue [active] 283942008321 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 283942008322 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 283942008323 active site 283942008324 phosphorylation site [posttranslational modification] 283942008325 intermolecular recognition site; other site 283942008326 dimerization interface [polypeptide binding]; other site 283942008327 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 283942008328 Walker A motif; other site 283942008329 ATP binding site [chemical binding]; other site 283942008330 Walker B motif; other site 283942008331 arginine finger; other site 283942008332 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 283942008333 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 283942008334 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 283942008335 dimerization interface [polypeptide binding]; other site 283942008336 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 283942008337 dimer interface [polypeptide binding]; other site 283942008338 phosphorylation site [posttranslational modification] 283942008339 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942008340 ATP binding site [chemical binding]; other site 283942008341 G-X-G motif; other site 283942008342 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 283942008343 acetolactate synthase; Reviewed; Region: PRK08322 283942008344 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 283942008345 PYR/PP interface [polypeptide binding]; other site 283942008346 dimer interface [polypeptide binding]; other site 283942008347 TPP binding site [chemical binding]; other site 283942008348 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 283942008349 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 283942008350 TPP-binding site [chemical binding]; other site 283942008351 dimer interface [polypeptide binding]; other site 283942008352 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 283942008353 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 283942008354 C-terminal domain interface [polypeptide binding]; other site 283942008355 GSH binding site (G-site) [chemical binding]; other site 283942008356 dimer interface [polypeptide binding]; other site 283942008357 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 283942008358 N-terminal domain interface [polypeptide binding]; other site 283942008359 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 283942008360 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 283942008361 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 283942008362 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 283942008363 N-terminal plug; other site 283942008364 ligand-binding site [chemical binding]; other site 283942008365 Predicted membrane protein [Function unknown]; Region: COG3503 283942008366 MerC mercury resistance protein; Region: MerC; pfam03203 283942008367 Predicted permease; Region: DUF318; cl17795 283942008368 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 283942008369 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 283942008370 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 283942008371 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 283942008372 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 283942008373 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 283942008374 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 283942008375 Phosphoesterase family; Region: Phosphoesterase; pfam04185 283942008376 Domain of unknown function (DUF756); Region: DUF756; pfam05506 283942008377 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 283942008378 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 283942008379 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 283942008380 Mu-like prophage protein Com; Region: Mu-like_Com; cl11540 283942008381 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 283942008382 Peptidase family M23; Region: Peptidase_M23; pfam01551 283942008383 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 283942008384 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 283942008385 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 283942008386 ATP binding site [chemical binding]; other site 283942008387 Mg2+ binding site [ion binding]; other site 283942008388 G-X-G motif; other site 283942008389 Methyltransferase domain; Region: Methyltransf_26; pfam13659 283942008390 TniQ; Region: TniQ; pfam06527 283942008391 AAA ATPase domain; Region: AAA_16; pfam13191 283942008392 AAA domain; Region: AAA_22; pfam13401 283942008393 Walker A motif; other site 283942008394 ATP binding site [chemical binding]; other site 283942008395 Walker B motif; other site 283942008396 Tn7 transposition regulator TnsC; Region: Tn7_TnsC_Int; pfam11426 283942008397 Integrase core domain; Region: rve; pfam00665 283942008398 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 283942008399 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 283942008400 Helix-turn-helix domain; Region: HTH_37; pfam13744 283942008401 sequence-specific DNA binding site [nucleotide binding]; other site 283942008402 salt bridge; other site 283942008403 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 283942008404 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 283942008405 glutaminase active site [active] 283942008406 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 283942008407 dimer interface [polypeptide binding]; other site 283942008408 active site 283942008409 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 283942008410 dimer interface [polypeptide binding]; other site 283942008411 active site 283942008412 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 283942008413 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 283942008414 Substrate binding site; other site 283942008415 Mg++ binding site; other site 283942008416 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 283942008417 active site 283942008418 substrate binding site [chemical binding]; other site 283942008419 CoA binding site [chemical binding]; other site 283942008420 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 283942008421 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 283942008422 gamma subunit interface [polypeptide binding]; other site 283942008423 epsilon subunit interface [polypeptide binding]; other site 283942008424 LBP interface [polypeptide binding]; other site 283942008425 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 283942008426 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 283942008427 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 283942008428 alpha subunit interaction interface [polypeptide binding]; other site 283942008429 Walker A motif; other site 283942008430 ATP binding site [chemical binding]; other site 283942008431 Walker B motif; other site 283942008432 inhibitor binding site; inhibition site 283942008433 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 283942008434 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 283942008435 core domain interface [polypeptide binding]; other site 283942008436 delta subunit interface [polypeptide binding]; other site 283942008437 epsilon subunit interface [polypeptide binding]; other site 283942008438 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 283942008439 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 283942008440 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 283942008441 beta subunit interaction interface [polypeptide binding]; other site 283942008442 Walker A motif; other site 283942008443 ATP binding site [chemical binding]; other site 283942008444 Walker B motif; other site 283942008445 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 283942008446 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 283942008447 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 283942008448 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 283942008449 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 283942008450 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 283942008451 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 283942008452 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 283942008453 ATP synthase I chain; Region: ATP_synt_I; cl09170 283942008454 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 283942008455 ParB-like nuclease domain; Region: ParB; smart00470 283942008456 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 283942008457 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 283942008458 P-loop; other site 283942008459 Magnesium ion binding site [ion binding]; other site 283942008460 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 283942008461 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 283942008462 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 283942008463 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 283942008464 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 283942008465 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 283942008466 Putative phosphatase (DUF442); Region: DUF442; cl17385 283942008467 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 283942008468 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 283942008469 dimer interface [polypeptide binding]; other site 283942008470 active site 283942008471 metal binding site [ion binding]; metal-binding site 283942008472 glutathione binding site [chemical binding]; other site 283942008473 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 283942008474 GIY-YIG motif/motif A; other site 283942008475 putative active site [active] 283942008476 putative metal binding site [ion binding]; other site 283942008477 Fusaric acid resistance protein family; Region: FUSC; pfam04632 283942008478 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 283942008479 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 283942008480 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 283942008481 trmE is a tRNA modification GTPase; Region: trmE; cd04164 283942008482 G1 box; other site 283942008483 GTP/Mg2+ binding site [chemical binding]; other site 283942008484 Switch I region; other site 283942008485 G2 box; other site 283942008486 Switch II region; other site 283942008487 G3 box; other site 283942008488 G4 box; other site 283942008489 G5 box; other site 283942008490 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 283942008491 membrane protein insertase; Provisional; Region: PRK01318 283942008492 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 283942008493 Haemolytic domain; Region: Haemolytic; pfam01809 283942008494 ribonuclease P; Reviewed; Region: rnpA; PRK01732 283942008495 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399