-- dump date 20140620_064229 -- class Genbank::misc_feature -- table misc_feature_note -- id note 398579000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 398579000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 398579000003 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 398579000004 Walker A motif; other site 398579000005 ATP binding site [chemical binding]; other site 398579000006 Walker B motif; other site 398579000007 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 398579000008 arginine finger; other site 398579000009 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 398579000010 DnaA box-binding interface [nucleotide binding]; other site 398579000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 398579000012 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 398579000013 putative DNA binding surface [nucleotide binding]; other site 398579000014 dimer interface [polypeptide binding]; other site 398579000015 beta-clamp/clamp loader binding surface; other site 398579000016 beta-clamp/translesion DNA polymerase binding surface; other site 398579000017 recombination protein F; Reviewed; Region: recF; PRK00064 398579000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398579000019 Walker A/P-loop; other site 398579000020 ATP binding site [chemical binding]; other site 398579000021 Q-loop/lid; other site 398579000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398579000023 ABC transporter signature motif; other site 398579000024 Walker B; other site 398579000025 D-loop; other site 398579000026 H-loop/switch region; other site 398579000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 398579000028 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579000029 Mg2+ binding site [ion binding]; other site 398579000030 G-X-G motif; other site 398579000031 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 398579000032 anchoring element; other site 398579000033 dimer interface [polypeptide binding]; other site 398579000034 ATP binding site [chemical binding]; other site 398579000035 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 398579000036 active site 398579000037 putative metal-binding site [ion binding]; other site 398579000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 398579000039 HDOD domain; Region: HDOD; pfam08668 398579000040 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398579000041 Zn2+ binding site [ion binding]; other site 398579000042 Mg2+ binding site [ion binding]; other site 398579000043 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 398579000044 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 398579000045 dimer interface [polypeptide binding]; other site 398579000046 motif 1; other site 398579000047 active site 398579000048 motif 2; other site 398579000049 motif 3; other site 398579000050 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 398579000051 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukB; COG3096 398579000052 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 398579000053 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 398579000054 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 398579000055 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 398579000056 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 398579000057 active site 398579000058 MOSC domain; Region: MOSC; pfam03473 398579000059 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 398579000060 CPxP motif; other site 398579000061 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 398579000062 putative deacylase active site [active] 398579000063 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 398579000064 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398579000065 Coenzyme A binding pocket [chemical binding]; other site 398579000066 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 398579000067 Integrase core domain; Region: rve; pfam00665 398579000068 Integrase core domain; Region: rve_3; pfam13683 398579000069 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 398579000070 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 398579000071 dimer interface [polypeptide binding]; other site 398579000072 active site 398579000073 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 398579000074 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 398579000075 substrate binding site [chemical binding]; other site 398579000076 oxyanion hole (OAH) forming residues; other site 398579000077 trimer interface [polypeptide binding]; other site 398579000078 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 398579000079 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398579000080 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398579000081 proline dipeptidase; Provisional; Region: PRK13607 398579000082 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 398579000083 active site 398579000084 hypothetical protein; Provisional; Region: PRK11568 398579000085 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 398579000086 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 398579000087 Cation transport protein; Region: TrkH; cl17365 398579000088 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 398579000089 Flavodoxin domain; Region: Flavodoxin_5; cl17428 398579000090 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 398579000091 Integrase core domain; Region: rve; pfam00665 398579000092 Integrase core domain; Region: rve_3; pfam13683 398579000093 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 398579000094 dimerization interface [polypeptide binding]; other site 398579000095 putative DNA binding site [nucleotide binding]; other site 398579000096 putative Zn2+ binding site [ion binding]; other site 398579000097 Flavodoxin domain; Region: Flavodoxin_5; cl17428 398579000098 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 398579000099 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 398579000100 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 398579000101 TrkA-N domain; Region: TrkA_N; pfam02254 398579000102 TrkA-C domain; Region: TrkA_C; pfam02080 398579000103 TrkA-N domain; Region: TrkA_N; pfam02254 398579000104 TrkA-C domain; Region: TrkA_C; pfam02080 398579000105 16S rRNA methyltransferase B; Provisional; Region: PRK10901 398579000106 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 398579000107 putative RNA binding site [nucleotide binding]; other site 398579000108 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 398579000109 S-adenosylmethionine binding site [chemical binding]; other site 398579000110 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 398579000111 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 398579000112 putative active site [active] 398579000113 substrate binding site [chemical binding]; other site 398579000114 putative cosubstrate binding site; other site 398579000115 catalytic site [active] 398579000116 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 398579000117 substrate binding site [chemical binding]; other site 398579000118 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 398579000119 active site 398579000120 catalytic residues [active] 398579000121 metal binding site [ion binding]; metal-binding site 398579000122 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 398579000123 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398579000124 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 398579000125 DNA protecting protein DprA; Region: dprA; TIGR00732 398579000126 Protein of unknown function (DUF494); Region: DUF494; pfam04361 398579000127 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 398579000128 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 398579000129 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 398579000130 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 398579000131 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 398579000132 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 398579000133 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 398579000134 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 398579000135 apolar tunnel; other site 398579000136 heme binding site [chemical binding]; other site 398579000137 dimerization interface [polypeptide binding]; other site 398579000138 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 398579000139 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 398579000140 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 398579000141 shikimate binding site; other site 398579000142 NAD(P) binding site [chemical binding]; other site 398579000143 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 398579000144 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 398579000145 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 398579000146 trimer interface [polypeptide binding]; other site 398579000147 putative metal binding site [ion binding]; other site 398579000148 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 398579000149 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 398579000150 TPR motif; other site 398579000151 binding surface 398579000152 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 398579000153 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 398579000154 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 398579000155 NAD(P) binding site [chemical binding]; other site 398579000156 homodimer interface [polypeptide binding]; other site 398579000157 substrate binding site [chemical binding]; other site 398579000158 active site 398579000159 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 398579000160 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 398579000161 inhibitor-cofactor binding pocket; inhibition site 398579000162 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579000163 catalytic residue [active] 398579000164 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 398579000165 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 398579000166 active site 398579000167 homodimer interface [polypeptide binding]; other site 398579000168 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 398579000169 NeuB family; Region: NeuB; pfam03102 398579000170 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 398579000171 NeuB binding interface [polypeptide binding]; other site 398579000172 putative substrate binding site [chemical binding]; other site 398579000173 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 398579000174 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 398579000175 putative trimer interface [polypeptide binding]; other site 398579000176 putative CoA binding site [chemical binding]; other site 398579000177 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 398579000178 FOG: CBS domain [General function prediction only]; Region: COG0517 398579000179 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 398579000180 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 398579000181 Substrate binding site; other site 398579000182 metal-binding site 398579000183 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 398579000184 ligand binding site; other site 398579000185 tetramer interface; other site 398579000186 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 398579000187 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 398579000188 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398579000189 ligand binding site [chemical binding]; other site 398579000190 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 398579000191 flagellar motor stator protein MotA; Region: MotA1; TIGR03818 398579000192 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 398579000193 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398579000194 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 398579000195 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 398579000196 DNA binding residues [nucleotide binding] 398579000197 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 398579000198 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 398579000199 Flagellar protein FliS; Region: FliS; cl00654 398579000200 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 398579000201 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 398579000202 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 398579000203 flagellin; Provisional; Region: PRK12802 398579000204 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 398579000205 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 398579000206 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 398579000207 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 398579000208 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07191 398579000209 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 398579000210 peptidoglycan hydrolase; Reviewed; Region: flgJ; PRK12708 398579000211 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 398579000212 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 398579000213 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 398579000214 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12407 398579000215 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 398579000216 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 398579000217 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 398579000218 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 398579000219 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 398579000220 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 398579000221 flagellar hook protein FlgE; Validated; Region: flgE; PRK06803 398579000222 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 398579000223 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 398579000224 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 398579000225 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK09619 398579000226 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 398579000227 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 398579000228 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK06802 398579000229 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 398579000230 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 398579000231 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK12685 398579000232 SAF-like; Region: SAF_2; pfam13144 398579000233 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 398579000234 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 398579000235 FlgN protein; Region: FlgN; pfam05130 398579000236 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 398579000237 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 398579000238 Walker A motif; other site 398579000239 ATP binding site [chemical binding]; other site 398579000240 Walker B motif; other site 398579000241 flagellar assembly protein H; Provisional; Region: fliH; PRK13386 398579000242 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 398579000243 Flagellar assembly protein FliH; Region: FliH; pfam02108 398579000244 flagellar motor switch protein G; Reviewed; Region: fliG; PRK07194 398579000245 FliG C-terminal domain; Region: FliG_C; pfam01706 398579000246 flagellar MS-ring protein; Reviewed; Region: fliF; PRK07193 398579000247 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 398579000248 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 398579000249 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 398579000250 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 398579000251 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 398579000252 Walker A motif; other site 398579000253 ATP binding site [chemical binding]; other site 398579000254 Walker B motif; other site 398579000255 arginine finger; other site 398579000256 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398579000257 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398579000258 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398579000259 ligand binding site [chemical binding]; other site 398579000260 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 398579000261 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 398579000262 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 398579000263 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 398579000264 Flagellar biosynthesis pathway, component FliQ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliQ; COG1987 398579000265 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 398579000266 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 398579000267 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 398579000268 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 398579000269 FHIPEP family; Region: FHIPEP; pfam00771 398579000270 lysophospholipase L2; Provisional; Region: PRK10749 398579000271 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398579000272 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 398579000273 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 398579000274 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 398579000275 FeS/SAM binding site; other site 398579000276 HemN C-terminal domain; Region: HemN_C; pfam06969 398579000277 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 398579000278 Der GTPase activator; Provisional; Region: PRK05244 398579000279 Methyltransferase domain; Region: Methyltransf_23; pfam13489 398579000280 Cytochrome c553 [Energy production and conversion]; Region: COG2863 398579000281 Cytochrome c; Region: Cytochrom_C; cl11414 398579000282 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 398579000283 G1 box; other site 398579000284 GTP/Mg2+ binding site [chemical binding]; other site 398579000285 Switch I region; other site 398579000286 G2 box; other site 398579000287 G3 box; other site 398579000288 Switch II region; other site 398579000289 G4 box; other site 398579000290 G5 box; other site 398579000291 DNA polymerase I; Provisional; Region: PRK05755 398579000292 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 398579000293 active site 398579000294 metal binding site 1 [ion binding]; metal-binding site 398579000295 putative 5' ssDNA interaction site; other site 398579000296 metal binding site 3; metal-binding site 398579000297 metal binding site 2 [ion binding]; metal-binding site 398579000298 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 398579000299 putative DNA binding site [nucleotide binding]; other site 398579000300 putative metal binding site [ion binding]; other site 398579000301 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 398579000302 active site 398579000303 catalytic site [active] 398579000304 substrate binding site [chemical binding]; other site 398579000305 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 398579000306 active site 398579000307 DNA binding site [nucleotide binding] 398579000308 catalytic site [active] 398579000309 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 398579000310 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 398579000311 conserved cys residue [active] 398579000312 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 398579000313 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 398579000314 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 398579000315 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 398579000316 active site residue [active] 398579000317 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 398579000318 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 398579000319 NAD(P) binding site [chemical binding]; other site 398579000320 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 398579000321 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 398579000322 substrate-cofactor binding pocket; other site 398579000323 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579000324 catalytic residue [active] 398579000325 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398579000326 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398579000327 Bacterial transcriptional repressor; Region: TetR; pfam13972 398579000328 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 398579000329 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 398579000330 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 398579000331 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 398579000332 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 398579000333 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 398579000334 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 398579000335 putative active site [active] 398579000336 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398579000337 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 398579000338 putative ADP-binding pocket [chemical binding]; other site 398579000339 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 398579000340 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 398579000341 putative ADP-binding pocket [chemical binding]; other site 398579000342 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398579000343 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 398579000344 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 398579000345 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 398579000346 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 398579000347 hypothetical protein; Provisional; Region: PRK05409 398579000348 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 398579000349 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398579000350 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 398579000351 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 398579000352 DNA binding residues [nucleotide binding] 398579000353 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 398579000354 Domain of unknown function (DUF333); Region: DUF333; pfam03891 398579000355 Domain of unknown function (DUF333); Region: DUF333; pfam03891 398579000356 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 398579000357 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 398579000358 tetramer interface [polypeptide binding]; other site 398579000359 heme binding pocket [chemical binding]; other site 398579000360 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 398579000361 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 398579000362 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 398579000363 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 398579000364 ATP binding site [chemical binding]; other site 398579000365 substrate interface [chemical binding]; other site 398579000366 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 398579000367 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 398579000368 dimer interface [polypeptide binding]; other site 398579000369 putative functional site; other site 398579000370 putative MPT binding site; other site 398579000371 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 398579000372 Ferritin-like domain; Region: Ferritin; pfam00210 398579000373 ferroxidase diiron center [ion binding]; other site 398579000374 Nitrate and nitrite sensing; Region: NIT; pfam08376 398579000375 HAMP domain; Region: HAMP; pfam00672 398579000376 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 398579000377 PAS domain; Region: PAS_9; pfam13426 398579000378 putative active site [active] 398579000379 heme pocket [chemical binding]; other site 398579000380 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579000381 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579000382 metal binding site [ion binding]; metal-binding site 398579000383 active site 398579000384 I-site; other site 398579000385 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 398579000386 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 398579000387 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 398579000388 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 398579000389 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398579000390 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 398579000391 GIY-YIG motif/motif A; other site 398579000392 putative active site [active] 398579000393 putative metal binding site [ion binding]; other site 398579000394 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 398579000395 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 398579000396 Catalytic site [active] 398579000397 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 398579000398 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 398579000399 S-adenosylmethionine binding site [chemical binding]; other site 398579000400 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 398579000401 putative active site [active] 398579000402 Zn binding site [ion binding]; other site 398579000403 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 398579000404 non-specific DNA binding site [nucleotide binding]; other site 398579000405 salt bridge; other site 398579000406 sequence-specific DNA binding site [nucleotide binding]; other site 398579000407 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 398579000408 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 398579000409 active site 398579000410 substrate-binding site [chemical binding]; other site 398579000411 metal-binding site [ion binding] 398579000412 ATP binding site [chemical binding]; other site 398579000413 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 398579000414 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 398579000415 dimerization interface [polypeptide binding]; other site 398579000416 domain crossover interface; other site 398579000417 redox-dependent activation switch; other site 398579000418 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 398579000419 RNA binding surface [nucleotide binding]; other site 398579000420 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 398579000421 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 398579000422 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 398579000423 type II secretion system protein D; Region: type_II_gspD; TIGR02517 398579000424 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398579000425 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398579000426 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398579000427 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398579000428 type II secretion system protein E; Region: type_II_gspE; TIGR02533 398579000429 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 398579000430 Walker A motif; other site 398579000431 ATP binding site [chemical binding]; other site 398579000432 Walker B motif; other site 398579000433 type II secretion system protein F; Region: GspF; TIGR02120 398579000434 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398579000435 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398579000436 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 398579000437 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 398579000438 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 398579000439 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 398579000440 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 398579000441 type II secretion system protein I; Region: gspI; TIGR01707 398579000442 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 398579000443 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 398579000444 type II secretion system protein J; Region: gspJ; TIGR01711 398579000445 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 398579000446 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 398579000447 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 398579000448 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 398579000449 GspL periplasmic domain; Region: GspL_C; pfam12693 398579000450 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 398579000451 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 398579000452 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 398579000453 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 398579000454 motif II; other site 398579000455 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 398579000456 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 398579000457 dimer interface [polypeptide binding]; other site 398579000458 ADP-ribose binding site [chemical binding]; other site 398579000459 active site 398579000460 nudix motif; other site 398579000461 metal binding site [ion binding]; metal-binding site 398579000462 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 398579000463 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 398579000464 active site 398579000465 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 398579000466 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398579000467 Coenzyme A binding pocket [chemical binding]; other site 398579000468 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 398579000469 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 398579000470 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 398579000471 active site residue [active] 398579000472 selenophosphate synthetase; Provisional; Region: PRK00943 398579000473 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 398579000474 dimerization interface [polypeptide binding]; other site 398579000475 putative ATP binding site [chemical binding]; other site 398579000476 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 398579000477 Fatty acid desaturase; Region: FA_desaturase; pfam00487 398579000478 Di-iron ligands [ion binding]; other site 398579000479 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 398579000480 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 398579000481 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398579000482 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 398579000483 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 398579000484 S-adenosylmethionine binding site [chemical binding]; other site 398579000485 glutamate racemase; Provisional; Region: PRK00865 398579000486 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 398579000487 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 398579000488 FAD binding domain; Region: FAD_binding_4; pfam01565 398579000489 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 398579000490 Biotin operon repressor [Transcription]; Region: BirA; COG1654 398579000491 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 398579000492 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 398579000493 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 398579000494 pantothenate kinase; Provisional; Region: PRK05439 398579000495 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 398579000496 ATP-binding site [chemical binding]; other site 398579000497 CoA-binding site [chemical binding]; other site 398579000498 Mg2+-binding site [ion binding]; other site 398579000499 elongation factor Tu; Reviewed; Region: PRK00049 398579000500 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 398579000501 G1 box; other site 398579000502 GEF interaction site [polypeptide binding]; other site 398579000503 GTP/Mg2+ binding site [chemical binding]; other site 398579000504 Switch I region; other site 398579000505 G2 box; other site 398579000506 G3 box; other site 398579000507 Switch II region; other site 398579000508 G4 box; other site 398579000509 G5 box; other site 398579000510 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 398579000511 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 398579000512 Antibiotic Binding Site [chemical binding]; other site 398579000513 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 398579000514 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 398579000515 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 398579000516 putative homodimer interface [polypeptide binding]; other site 398579000517 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 398579000518 heterodimer interface [polypeptide binding]; other site 398579000519 homodimer interface [polypeptide binding]; other site 398579000520 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 398579000521 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 398579000522 23S rRNA interface [nucleotide binding]; other site 398579000523 L7/L12 interface [polypeptide binding]; other site 398579000524 putative thiostrepton binding site; other site 398579000525 L25 interface [polypeptide binding]; other site 398579000526 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 398579000527 mRNA/rRNA interface [nucleotide binding]; other site 398579000528 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 398579000529 23S rRNA interface [nucleotide binding]; other site 398579000530 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 398579000531 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 398579000532 core dimer interface [polypeptide binding]; other site 398579000533 peripheral dimer interface [polypeptide binding]; other site 398579000534 L10 interface [polypeptide binding]; other site 398579000535 L11 interface [polypeptide binding]; other site 398579000536 putative EF-Tu interaction site [polypeptide binding]; other site 398579000537 putative EF-G interaction site [polypeptide binding]; other site 398579000538 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 398579000539 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 398579000540 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 398579000541 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 398579000542 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 398579000543 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 398579000544 RPB3 interaction site [polypeptide binding]; other site 398579000545 RPB1 interaction site [polypeptide binding]; other site 398579000546 RPB11 interaction site [polypeptide binding]; other site 398579000547 RPB10 interaction site [polypeptide binding]; other site 398579000548 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 398579000549 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 398579000550 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 398579000551 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 398579000552 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 398579000553 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 398579000554 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 398579000555 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 398579000556 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 398579000557 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 398579000558 DNA binding site [nucleotide binding] 398579000559 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 398579000560 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 398579000561 S17 interaction site [polypeptide binding]; other site 398579000562 S8 interaction site; other site 398579000563 16S rRNA interaction site [nucleotide binding]; other site 398579000564 streptomycin interaction site [chemical binding]; other site 398579000565 23S rRNA interaction site [nucleotide binding]; other site 398579000566 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 398579000567 30S ribosomal protein S7; Validated; Region: PRK05302 398579000568 elongation factor G; Reviewed; Region: PRK00007 398579000569 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 398579000570 G1 box; other site 398579000571 putative GEF interaction site [polypeptide binding]; other site 398579000572 GTP/Mg2+ binding site [chemical binding]; other site 398579000573 Switch I region; other site 398579000574 G2 box; other site 398579000575 G3 box; other site 398579000576 Switch II region; other site 398579000577 G4 box; other site 398579000578 G5 box; other site 398579000579 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 398579000580 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 398579000581 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 398579000582 elongation factor Tu; Reviewed; Region: PRK00049 398579000583 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 398579000584 G1 box; other site 398579000585 GEF interaction site [polypeptide binding]; other site 398579000586 GTP/Mg2+ binding site [chemical binding]; other site 398579000587 Switch I region; other site 398579000588 G2 box; other site 398579000589 G3 box; other site 398579000590 Switch II region; other site 398579000591 G4 box; other site 398579000592 G5 box; other site 398579000593 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 398579000594 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 398579000595 Antibiotic Binding Site [chemical binding]; other site 398579000596 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 398579000597 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 398579000598 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 398579000599 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 398579000600 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 398579000601 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 398579000602 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 398579000603 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 398579000604 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 398579000605 putative translocon binding site; other site 398579000606 protein-rRNA interface [nucleotide binding]; other site 398579000607 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 398579000608 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 398579000609 G-X-X-G motif; other site 398579000610 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 398579000611 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 398579000612 23S rRNA interface [nucleotide binding]; other site 398579000613 5S rRNA interface [nucleotide binding]; other site 398579000614 putative antibiotic binding site [chemical binding]; other site 398579000615 L25 interface [polypeptide binding]; other site 398579000616 L27 interface [polypeptide binding]; other site 398579000617 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 398579000618 23S rRNA interface [nucleotide binding]; other site 398579000619 putative translocon interaction site; other site 398579000620 signal recognition particle (SRP54) interaction site; other site 398579000621 L23 interface [polypeptide binding]; other site 398579000622 trigger factor interaction site; other site 398579000623 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 398579000624 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 398579000625 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 398579000626 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 398579000627 RNA binding site [nucleotide binding]; other site 398579000628 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 398579000629 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 398579000630 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 398579000631 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 398579000632 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 398579000633 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 398579000634 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 398579000635 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 398579000636 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 398579000637 5S rRNA interface [nucleotide binding]; other site 398579000638 23S rRNA interface [nucleotide binding]; other site 398579000639 L5 interface [polypeptide binding]; other site 398579000640 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 398579000641 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 398579000642 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 398579000643 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 398579000644 23S rRNA binding site [nucleotide binding]; other site 398579000645 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 398579000646 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 398579000647 SecY translocase; Region: SecY; pfam00344 398579000648 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 398579000649 30S ribosomal protein S13; Region: bact_S13; TIGR03631 398579000650 30S ribosomal protein S11; Validated; Region: PRK05309 398579000651 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 398579000652 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 398579000653 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 398579000654 RNA binding surface [nucleotide binding]; other site 398579000655 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 398579000656 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 398579000657 alphaNTD homodimer interface [polypeptide binding]; other site 398579000658 alphaNTD - beta interaction site [polypeptide binding]; other site 398579000659 alphaNTD - beta' interaction site [polypeptide binding]; other site 398579000660 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 398579000661 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 398579000662 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 398579000663 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 398579000664 heme exporter protein CcmC; Region: ccmC; TIGR01191 398579000665 CcmB protein; Region: CcmB; pfam03379 398579000666 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 398579000667 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398579000668 Walker A/P-loop; other site 398579000669 ATP binding site [chemical binding]; other site 398579000670 Q-loop/lid; other site 398579000671 ABC transporter signature motif; other site 398579000672 Walker B; other site 398579000673 D-loop; other site 398579000674 H-loop/switch region; other site 398579000675 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 398579000676 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 398579000677 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 398579000678 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 398579000679 binding surface 398579000680 TPR motif; other site 398579000681 cytochrome c nitrate reductase biogenesis protein NrfE; Region: cyt_nit_nrfE; TIGR03145 398579000682 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 398579000683 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 398579000684 catalytic residues [active] 398579000685 central insert; other site 398579000686 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 398579000687 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 398579000688 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398579000689 catalytic residues [active] 398579000690 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398579000691 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398579000692 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 398579000693 competence damage-inducible protein A; Provisional; Region: PRK00549 398579000694 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 398579000695 putative MPT binding site; other site 398579000696 Competence-damaged protein; Region: CinA; pfam02464 398579000697 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 398579000698 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 398579000699 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 398579000700 acetylornithine deacetylase; Provisional; Region: PRK05111 398579000701 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 398579000702 metal binding site [ion binding]; metal-binding site 398579000703 putative dimer interface [polypeptide binding]; other site 398579000704 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 398579000705 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 398579000706 acetylglutamate kinase; Provisional; Region: PRK00942 398579000707 nucleotide binding site [chemical binding]; other site 398579000708 substrate binding site [chemical binding]; other site 398579000709 ornithine carbamoyltransferase; Provisional; Region: PRK14805 398579000710 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 398579000711 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 398579000712 argininosuccinate synthase; Provisional; Region: PRK13820 398579000713 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 398579000714 ANP binding site [chemical binding]; other site 398579000715 Substrate Binding Site II [chemical binding]; other site 398579000716 Substrate Binding Site I [chemical binding]; other site 398579000717 argininosuccinate lyase; Provisional; Region: PRK04833 398579000718 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 398579000719 active sites [active] 398579000720 tetramer interface [polypeptide binding]; other site 398579000721 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 398579000722 Transglycosylase; Region: Transgly; pfam00912 398579000723 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 398579000724 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 398579000725 Competence protein A; Region: Competence_A; pfam11104 398579000726 nucleotide binding site [chemical binding]; other site 398579000727 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 398579000728 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 398579000729 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 398579000730 Pilus assembly protein, PilO; Region: PilO; pfam04350 398579000731 Pilus assembly protein, PilP; Region: PilP; pfam04351 398579000732 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 398579000733 Secretin and TonB N terminus short domain; Region: STN; smart00965 398579000734 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398579000735 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398579000736 shikimate kinase; Reviewed; Region: aroK; PRK00131 398579000737 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 398579000738 ADP binding site [chemical binding]; other site 398579000739 magnesium binding site [ion binding]; other site 398579000740 putative shikimate binding site; other site 398579000741 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 398579000742 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 398579000743 active site 398579000744 dimer interface [polypeptide binding]; other site 398579000745 metal binding site [ion binding]; metal-binding site 398579000746 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398579000747 AAA domain; Region: AAA_22; pfam13401 398579000748 Walker A/P-loop; other site 398579000749 ATP binding site [chemical binding]; other site 398579000750 Sporulation related domain; Region: SPOR; pfam05036 398579000751 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 398579000752 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 398579000753 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 398579000754 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 398579000755 substrate binding site [chemical binding]; other site 398579000756 hexamer interface [polypeptide binding]; other site 398579000757 metal binding site [ion binding]; metal-binding site 398579000758 phosphoglycolate phosphatase; Provisional; Region: PRK13222 398579000759 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 398579000760 motif II; other site 398579000761 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 398579000762 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 398579000763 active site 398579000764 HIGH motif; other site 398579000765 dimer interface [polypeptide binding]; other site 398579000766 KMSKS motif; other site 398579000767 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398579000768 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579000769 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 398579000770 dimerization interface [polypeptide binding]; other site 398579000771 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 398579000772 EamA-like transporter family; Region: EamA; pfam00892 398579000773 outer membrane lipoprotein; Provisional; Region: PRK11023 398579000774 BON domain; Region: BON; cl02771 398579000775 BON domain; Region: BON; pfam04972 398579000776 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 398579000777 dimer interface [polypeptide binding]; other site 398579000778 active site 398579000779 hypothetical protein; Reviewed; Region: PRK12497 398579000780 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 398579000781 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 398579000782 putative ligand binding site [chemical binding]; other site 398579000783 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 398579000784 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 398579000785 putative SAM binding site [chemical binding]; other site 398579000786 putative homodimer interface [polypeptide binding]; other site 398579000787 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 398579000788 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 398579000789 Walker A/P-loop; other site 398579000790 ATP binding site [chemical binding]; other site 398579000791 Q-loop/lid; other site 398579000792 ABC transporter signature motif; other site 398579000793 Walker B; other site 398579000794 D-loop; other site 398579000795 H-loop/switch region; other site 398579000796 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 398579000797 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 398579000798 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 398579000799 dimer interface [polypeptide binding]; other site 398579000800 conserved gate region; other site 398579000801 putative PBP binding loops; other site 398579000802 ABC-ATPase subunit interface; other site 398579000803 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 398579000804 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 398579000805 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579000806 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 398579000807 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 398579000808 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 398579000809 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 398579000810 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 398579000811 Ferredoxin [Energy production and conversion]; Region: COG1146 398579000812 4Fe-4S binding domain; Region: Fer4; pfam00037 398579000813 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 398579000814 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 398579000815 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 398579000816 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 398579000817 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398579000818 HupE / UreJ protein; Region: HupE_UreJ; cl01011 398579000819 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579000820 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579000821 metal binding site [ion binding]; metal-binding site 398579000822 active site 398579000823 I-site; other site 398579000824 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579000825 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579000826 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 398579000827 putative effector binding pocket; other site 398579000828 putative dimerization interface [polypeptide binding]; other site 398579000829 glutathione-dependent formaldehyde-activating enzyme; Provisional; Region: PRK05417 398579000830 hypothetical protein; Provisional; Region: PRK11019 398579000831 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 398579000832 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 398579000833 substrate binding site [chemical binding]; other site 398579000834 catalytic Zn binding site [ion binding]; other site 398579000835 NAD binding site [chemical binding]; other site 398579000836 structural Zn binding site [ion binding]; other site 398579000837 dimer interface [polypeptide binding]; other site 398579000838 S-formylglutathione hydrolase; Region: PLN02442 398579000839 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 398579000840 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 398579000841 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 398579000842 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 398579000843 Surface antigen; Region: Bac_surface_Ag; pfam01103 398579000844 Uncharacterized conserved protein [Function unknown]; Region: COG2966 398579000845 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 398579000846 Uncharacterized conserved protein [Function unknown]; Region: COG3610 398579000847 MAPEG family; Region: MAPEG; cl09190 398579000848 hypothetical protein; Provisional; Region: PRK01254 398579000849 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 398579000850 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 398579000851 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 398579000852 Uncharacterized conserved protein [Function unknown]; Region: COG3339 398579000853 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 398579000854 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 398579000855 putative acyl-acceptor binding pocket; other site 398579000856 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 398579000857 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 398579000858 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398579000859 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398579000860 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 398579000861 dimer interface [polypeptide binding]; other site 398579000862 phosphorylation site [posttranslational modification] 398579000863 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579000864 ATP binding site [chemical binding]; other site 398579000865 Mg2+ binding site [ion binding]; other site 398579000866 G-X-G motif; other site 398579000867 Response regulator receiver domain; Region: Response_reg; pfam00072 398579000868 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579000869 active site 398579000870 phosphorylation site [posttranslational modification] 398579000871 intermolecular recognition site; other site 398579000872 dimerization interface [polypeptide binding]; other site 398579000873 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 398579000874 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 398579000875 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 398579000876 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 398579000877 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 398579000878 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 398579000879 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 398579000880 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 398579000881 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 398579000882 DXD motif; other site 398579000883 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 398579000884 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 398579000885 ATP binding site [chemical binding]; other site 398579000886 Mg2+ binding site [ion binding]; other site 398579000887 G-X-G motif; other site 398579000888 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 398579000889 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 398579000890 active site 398579000891 Substrate binding site; other site 398579000892 Mg++ binding site; other site 398579000893 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 398579000894 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 398579000895 anti sigma factor interaction site; other site 398579000896 regulatory phosphorylation site [posttranslational modification]; other site 398579000897 Response regulator receiver domain; Region: Response_reg; pfam00072 398579000898 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579000899 active site 398579000900 phosphorylation site [posttranslational modification] 398579000901 intermolecular recognition site; other site 398579000902 dimerization interface [polypeptide binding]; other site 398579000903 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 398579000904 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 398579000905 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 398579000906 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 398579000907 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 398579000908 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 398579000909 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 398579000910 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 398579000911 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 398579000912 Uncharacterized conserved protein [Function unknown]; Region: COG0397 398579000913 hypothetical protein; Validated; Region: PRK00029 398579000914 Protein of unknown function (DUF3630); Region: DUF3630; pfam12305 398579000915 serine/threonine protein kinase; Provisional; Region: PRK11768 398579000916 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 398579000917 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 398579000918 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 398579000919 catalytic residues [active] 398579000920 hinge region; other site 398579000921 alpha helical domain; other site 398579000922 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 398579000923 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 398579000924 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 398579000925 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 398579000926 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398579000927 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 398579000928 nucleophilic elbow; other site 398579000929 catalytic triad; other site 398579000930 TAP-like protein; Region: Abhydrolase_4; pfam08386 398579000931 Protein of unknown function (DUF4056); Region: DUF4056; pfam13265 398579000932 Surface antigen; Region: Bac_surface_Ag; pfam01103 398579000933 Cupin domain; Region: Cupin_2; pfam07883 398579000934 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 398579000935 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 398579000936 heme-binding residues [chemical binding]; other site 398579000937 L-aspartate oxidase; Provisional; Region: PRK06175 398579000938 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 398579000939 L-aspartate oxidase; Provisional; Region: PRK06175 398579000940 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398579000941 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398579000942 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 398579000943 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 398579000944 homodimer interface [polypeptide binding]; other site 398579000945 substrate-cofactor binding pocket; other site 398579000946 catalytic residue [active] 398579000947 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 398579000948 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 398579000949 putative acyl-acceptor binding pocket; other site 398579000950 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 398579000951 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 398579000952 putative acyl-acceptor binding pocket; other site 398579000953 Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits...; Region: Prefoldin; cl09111 398579000954 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 398579000955 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 398579000956 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 398579000957 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 398579000958 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 398579000959 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 398579000960 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 398579000961 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398579000962 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 398579000963 dimer interface [polypeptide binding]; other site 398579000964 phosphorylation site [posttranslational modification] 398579000965 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 398579000966 ATP binding site [chemical binding]; other site 398579000967 Mg2+ binding site [ion binding]; other site 398579000968 G-X-G motif; other site 398579000969 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398579000970 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579000971 active site 398579000972 phosphorylation site [posttranslational modification] 398579000973 intermolecular recognition site; other site 398579000974 dimerization interface [polypeptide binding]; other site 398579000975 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 398579000976 DNA binding site [nucleotide binding] 398579000977 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 398579000978 PAS fold; Region: PAS_3; pfam08447 398579000979 putative active site [active] 398579000980 heme pocket [chemical binding]; other site 398579000981 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398579000982 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398579000983 dimer interface [polypeptide binding]; other site 398579000984 putative CheW interface [polypeptide binding]; other site 398579000985 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 398579000986 active sites [active] 398579000987 tetramer interface [polypeptide binding]; other site 398579000988 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 398579000989 L-aspartate oxidase; Provisional; Region: PRK06175 398579000990 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 398579000991 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579000992 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579000993 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 398579000994 dimerization interface [polypeptide binding]; other site 398579000995 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 398579000996 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579000997 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 398579000998 substrate binding pocket [chemical binding]; other site 398579000999 dimerization interface [polypeptide binding]; other site 398579001000 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579001001 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 398579001002 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 398579001003 putative dimerization interface [polypeptide binding]; other site 398579001004 ketol-acid reductoisomerase; Validated; Region: PRK05225 398579001005 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 398579001006 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 398579001007 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 398579001008 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 398579001009 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398579001010 PYR/PP interface [polypeptide binding]; other site 398579001011 dimer interface [polypeptide binding]; other site 398579001012 TPP binding site [chemical binding]; other site 398579001013 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 398579001014 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 398579001015 TPP-binding site [chemical binding]; other site 398579001016 dimer interface [polypeptide binding]; other site 398579001017 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 398579001018 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 398579001019 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 398579001020 homodimer interface [polypeptide binding]; other site 398579001021 substrate-cofactor binding pocket; other site 398579001022 catalytic residue [active] 398579001023 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 398579001024 threonine dehydratase; Reviewed; Region: PRK09224 398579001025 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 398579001026 tetramer interface [polypeptide binding]; other site 398579001027 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579001028 catalytic residue [active] 398579001029 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 398579001030 putative Ile/Val binding site [chemical binding]; other site 398579001031 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 398579001032 putative Ile/Val binding site [chemical binding]; other site 398579001033 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 398579001034 homodimer interface [polypeptide binding]; other site 398579001035 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579001036 catalytic residue [active] 398579001037 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 398579001038 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 398579001039 N-terminal plug; other site 398579001040 ligand-binding site [chemical binding]; other site 398579001041 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 398579001042 Na2 binding site [ion binding]; other site 398579001043 putative substrate binding site 1 [chemical binding]; other site 398579001044 Na binding site 1 [ion binding]; other site 398579001045 putative substrate binding site 2 [chemical binding]; other site 398579001046 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398579001047 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 398579001048 putative DNA binding site [nucleotide binding]; other site 398579001049 putative Zn2+ binding site [ion binding]; other site 398579001050 AsnC family; Region: AsnC_trans_reg; pfam01037 398579001051 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 398579001052 active site 398579001053 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 398579001054 Protein of unknown function, DUF417; Region: DUF417; cl01162 398579001055 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 398579001056 multidrug efflux protein; Reviewed; Region: PRK09579 398579001057 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398579001058 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398579001059 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579001060 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398579001061 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398579001062 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 398579001063 Part of AAA domain; Region: AAA_19; pfam13245 398579001064 Family description; Region: UvrD_C_2; pfam13538 398579001065 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 398579001066 GAF domain; Region: GAF_2; pfam13185 398579001067 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398579001068 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 398579001069 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579001070 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579001071 metal binding site [ion binding]; metal-binding site 398579001072 active site 398579001073 I-site; other site 398579001074 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 398579001075 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 398579001076 dimerization interface [polypeptide binding]; other site 398579001077 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579001078 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579001079 metal binding site [ion binding]; metal-binding site 398579001080 active site 398579001081 I-site; other site 398579001082 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 398579001083 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 398579001084 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398579001085 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398579001086 ligand binding site [chemical binding]; other site 398579001087 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 398579001088 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 398579001089 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398579001090 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579001091 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 398579001092 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 398579001093 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398579001094 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 398579001095 Walker A/P-loop; other site 398579001096 ATP binding site [chemical binding]; other site 398579001097 Q-loop/lid; other site 398579001098 ABC transporter signature motif; other site 398579001099 Walker B; other site 398579001100 D-loop; other site 398579001101 H-loop/switch region; other site 398579001102 Calx-beta domain; Region: Calx-beta; cl02522 398579001103 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 398579001104 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 398579001105 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 398579001106 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 398579001107 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 398579001108 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 398579001109 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 398579001110 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 398579001111 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 398579001112 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 398579001113 Ca2+ binding site [ion binding]; other site 398579001114 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 398579001115 metal ion-dependent adhesion site (MIDAS); other site 398579001116 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 398579001117 VCBS repeat; Region: VCBS_repeat; TIGR01965 398579001118 VCBS repeat; Region: VCBS_repeat; TIGR01965 398579001119 VCBS repeat; Region: VCBS_repeat; TIGR01965 398579001120 VCBS repeat; Region: VCBS_repeat; TIGR01965 398579001121 VCBS repeat; Region: VCBS_repeat; TIGR01965 398579001122 VCBS repeat; Region: VCBS_repeat; TIGR01965 398579001123 VCBS repeat; Region: VCBS_repeat; TIGR01965 398579001124 VCBS repeat; Region: VCBS_repeat; TIGR01965 398579001125 VCBS repeat; Region: VCBS_repeat; TIGR01965 398579001126 VCBS repeat; Region: VCBS_repeat; TIGR01965 398579001127 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 398579001128 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 398579001129 HemY protein N-terminus; Region: HemY_N; pfam07219 398579001130 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 398579001131 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 398579001132 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 398579001133 active site 398579001134 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 398579001135 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 398579001136 domain interfaces; other site 398579001137 active site 398579001138 adenylate cyclase; Provisional; Region: cyaA; PRK09450 398579001139 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 398579001140 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 398579001141 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 398579001142 putative iron binding site [ion binding]; other site 398579001143 diaminopimelate decarboxylase; Region: lysA; TIGR01048 398579001144 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 398579001145 active site 398579001146 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398579001147 substrate binding site [chemical binding]; other site 398579001148 catalytic residues [active] 398579001149 dimer interface [polypeptide binding]; other site 398579001150 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 398579001151 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 398579001152 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 398579001153 Protein of unknown function, DUF484; Region: DUF484; cl17449 398579001154 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 398579001155 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 398579001156 active site 398579001157 DNA binding site [nucleotide binding] 398579001158 Int/Topo IB signature motif; other site 398579001159 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 398579001160 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 398579001161 motif II; other site 398579001162 Egg lysin (Sperm-lysin); Region: Egg_lysin; pfam01303 398579001163 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 398579001164 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 398579001165 Hemerythrin-like domain; Region: Hr-like; cd12108 398579001166 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 398579001167 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 398579001168 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 398579001169 carboxyltransferase (CT) interaction site; other site 398579001170 biotinylation site [posttranslational modification]; other site 398579001171 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579001172 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 398579001173 multifunctional aminopeptidase A; Provisional; Region: PRK00913 398579001174 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 398579001175 interface (dimer of trimers) [polypeptide binding]; other site 398579001176 Substrate-binding/catalytic site; other site 398579001177 Zn-binding sites [ion binding]; other site 398579001178 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 398579001179 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 398579001180 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 398579001181 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 398579001182 FMN binding site [chemical binding]; other site 398579001183 active site 398579001184 catalytic residues [active] 398579001185 substrate binding site [chemical binding]; other site 398579001186 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 398579001187 DNA methylase; Region: N6_N4_Mtase; cl17433 398579001188 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 398579001189 S-adenosylmethionine binding site [chemical binding]; other site 398579001190 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13554 398579001191 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 398579001192 Iron-sulfur protein interface; other site 398579001193 proximal heme binding site [chemical binding]; other site 398579001194 distal heme binding site [chemical binding]; other site 398579001195 dimer interface [polypeptide binding]; other site 398579001196 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 398579001197 Iron-sulfur protein interface; other site 398579001198 proximal heme binding site [chemical binding]; other site 398579001199 distal heme binding site [chemical binding]; other site 398579001200 dimer interface [polypeptide binding]; other site 398579001201 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 398579001202 L-aspartate oxidase; Provisional; Region: PRK06175 398579001203 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 398579001204 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 398579001205 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 398579001206 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579001207 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579001208 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 398579001209 putative effector binding pocket; other site 398579001210 dimerization interface [polypeptide binding]; other site 398579001211 transcription termination factor Rho; Provisional; Region: rho; PRK09376 398579001212 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 398579001213 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 398579001214 RNA binding site [nucleotide binding]; other site 398579001215 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 398579001216 multimer interface [polypeptide binding]; other site 398579001217 Walker A motif; other site 398579001218 ATP binding site [chemical binding]; other site 398579001219 Walker B motif; other site 398579001220 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 398579001221 catalytic residues [active] 398579001222 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 398579001223 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 398579001224 ATP binding site [chemical binding]; other site 398579001225 Mg++ binding site [ion binding]; other site 398579001226 motif III; other site 398579001227 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 398579001228 nucleotide binding region [chemical binding]; other site 398579001229 ATP-binding site [chemical binding]; other site 398579001230 exopolyphosphatase; Region: exo_poly_only; TIGR03706 398579001231 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 398579001232 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 398579001233 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 398579001234 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 398579001235 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 398579001236 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 398579001237 Integrase core domain; Region: rve; pfam00665 398579001238 Integrase core domain; Region: rve_3; pfam13683 398579001239 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 398579001240 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 398579001241 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 398579001242 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 398579001243 catalytic residues [active] 398579001244 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398579001245 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398579001246 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 398579001247 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 398579001248 active site 398579001249 8-oxo-dGMP binding site [chemical binding]; other site 398579001250 nudix motif; other site 398579001251 metal binding site [ion binding]; metal-binding site 398579001252 Domain of unknown function (DUF329); Region: DUF329; pfam03884 398579001253 hypothetical protein; Provisional; Region: PRK05287 398579001254 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 398579001255 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 398579001256 CoA-binding site [chemical binding]; other site 398579001257 ATP-binding [chemical binding]; other site 398579001258 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 398579001259 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 398579001260 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 398579001261 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 398579001262 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398579001263 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398579001264 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 398579001265 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 398579001266 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 398579001267 Walker A motif; other site 398579001268 ATP binding site [chemical binding]; other site 398579001269 Walker B motif; other site 398579001270 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 398579001271 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 398579001272 dimerization interface [polypeptide binding]; other site 398579001273 active site 398579001274 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 398579001275 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 398579001276 amidase catalytic site [active] 398579001277 Zn binding residues [ion binding]; other site 398579001278 substrate binding site [chemical binding]; other site 398579001279 regulatory protein AmpE; Provisional; Region: PRK10987 398579001280 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 398579001281 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398579001282 DNA-binding site [nucleotide binding]; DNA binding site 398579001283 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 398579001284 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 398579001285 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 398579001286 dimer interface [polypeptide binding]; other site 398579001287 TPP-binding site [chemical binding]; other site 398579001288 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 398579001289 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 398579001290 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 398579001291 E3 interaction surface; other site 398579001292 lipoyl attachment site [posttranslational modification]; other site 398579001293 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 398579001294 E3 interaction surface; other site 398579001295 lipoyl attachment site [posttranslational modification]; other site 398579001296 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 398579001297 E3 interaction surface; other site 398579001298 lipoyl attachment site [posttranslational modification]; other site 398579001299 e3 binding domain; Region: E3_binding; pfam02817 398579001300 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 398579001301 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 398579001302 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398579001303 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398579001304 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 398579001305 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 398579001306 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398579001307 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 398579001308 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 398579001309 putative active site [active] 398579001310 heme pocket [chemical binding]; other site 398579001311 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579001312 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579001313 metal binding site [ion binding]; metal-binding site 398579001314 active site 398579001315 I-site; other site 398579001316 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 398579001317 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 398579001318 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 398579001319 active site 398579001320 nucleophile elbow; other site 398579001321 Surface antigen; Region: Bac_surface_Ag; pfam01103 398579001322 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 398579001323 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 398579001324 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 398579001325 motif II; other site 398579001326 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 398579001327 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 398579001328 substrate binding site [chemical binding]; other site 398579001329 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 398579001330 substrate binding site [chemical binding]; other site 398579001331 ligand binding site [chemical binding]; other site 398579001332 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 398579001333 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 398579001334 substrate binding site [chemical binding]; other site 398579001335 active site 398579001336 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 398579001337 PAS domain; Region: PAS_9; pfam13426 398579001338 putative active site [active] 398579001339 heme pocket [chemical binding]; other site 398579001340 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579001341 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579001342 metal binding site [ion binding]; metal-binding site 398579001343 active site 398579001344 I-site; other site 398579001345 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 398579001346 11beta-hydroxysteroid dehydrogenase type 1 (11beta-HSD1)-like, classical (c) SDRs; Region: 11beta-HSD1_like_SDR_c; cd05332 398579001347 short chain dehydrogenase; Provisional; Region: PRK06181 398579001348 NADP binding site [chemical binding]; other site 398579001349 homodimer interface [polypeptide binding]; other site 398579001350 substrate binding site [chemical binding]; other site 398579001351 active site 398579001352 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 398579001353 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 398579001354 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 398579001355 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 398579001356 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 398579001357 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 398579001358 purine monophosphate binding site [chemical binding]; other site 398579001359 dimer interface [polypeptide binding]; other site 398579001360 putative catalytic residues [active] 398579001361 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 398579001362 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 398579001363 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 398579001364 DNA binding residues [nucleotide binding] 398579001365 dimer interface [polypeptide binding]; other site 398579001366 metal binding site [ion binding]; metal-binding site 398579001367 Predicted permease; Region: DUF318; cl17795 398579001368 Predicted permease; Region: DUF318; cl17795 398579001369 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 398579001370 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 398579001371 catalytic residues [active] 398579001372 hinge region; other site 398579001373 alpha helical domain; other site 398579001374 Protein of unknown function, DUF393; Region: DUF393; pfam04134 398579001375 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 398579001376 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 398579001377 molybdopterin cofactor binding site; other site 398579001378 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 398579001379 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 398579001380 molybdopterin cofactor binding site; other site 398579001381 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 398579001382 4Fe-4S binding domain; Region: Fer4; pfam00037 398579001383 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 398579001384 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 398579001385 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 398579001386 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 398579001387 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 398579001388 selenocysteine synthase; Provisional; Region: PRK04311 398579001389 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 398579001390 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 398579001391 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398579001392 catalytic residue [active] 398579001393 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 398579001394 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 398579001395 G1 box; other site 398579001396 putative GEF interaction site [polypeptide binding]; other site 398579001397 GTP/Mg2+ binding site [chemical binding]; other site 398579001398 Switch I region; other site 398579001399 G2 box; other site 398579001400 G3 box; other site 398579001401 Switch II region; other site 398579001402 G4 box; other site 398579001403 G5 box; other site 398579001404 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 398579001405 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 398579001406 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 398579001407 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 398579001408 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 398579001409 putative inner membrane protein; Provisional; Region: PRK11099 398579001410 hypothetical protein; Provisional; Region: PRK11018 398579001411 CPxP motif; other site 398579001412 hypothetical protein; Provisional; Region: PRK12378 398579001413 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579001414 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579001415 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 398579001416 putative effector binding pocket; other site 398579001417 dimerization interface [polypeptide binding]; other site 398579001418 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 398579001419 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398579001420 Coenzyme A binding pocket [chemical binding]; other site 398579001421 Radical SAM superfamily; Region: Radical_SAM; pfam04055 398579001422 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579001423 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579001424 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 398579001425 substrate binding pocket [chemical binding]; other site 398579001426 dimerization interface [polypeptide binding]; other site 398579001427 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579001428 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579001429 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 398579001430 dimerization interface [polypeptide binding]; other site 398579001431 outer membrane protein A; Reviewed; Region: PRK10808 398579001432 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 398579001433 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398579001434 ligand binding site [chemical binding]; other site 398579001435 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 398579001436 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398579001437 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 398579001438 uridine phosphorylase; Provisional; Region: PRK11178 398579001439 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 398579001440 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 398579001441 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 398579001442 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 398579001443 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 398579001444 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 398579001445 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 398579001446 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_21; cd04680 398579001447 nudix motif; other site 398579001448 PAS domain S-box; Region: sensory_box; TIGR00229 398579001449 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 398579001450 putative active site [active] 398579001451 heme pocket [chemical binding]; other site 398579001452 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579001453 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579001454 metal binding site [ion binding]; metal-binding site 398579001455 active site 398579001456 I-site; other site 398579001457 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 398579001458 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 398579001459 homotrimer interaction site [polypeptide binding]; other site 398579001460 putative active site [active] 398579001461 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 398579001462 Part of AAA domain; Region: AAA_19; pfam13245 398579001463 Family description; Region: UvrD_C_2; pfam13538 398579001464 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 398579001465 UbiA prenyltransferase family; Region: UbiA; pfam01040 398579001466 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 398579001467 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Deinococcus radiodurans DR2231 protein and its bacterial homologs; Region: NTP-PPase_DR2231_like; cd11530 398579001468 metal binding site [ion binding]; metal-binding site 398579001469 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 398579001470 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 398579001471 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398579001472 catalytic residues [active] 398579001473 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 398579001474 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 398579001475 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 398579001476 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 398579001477 active site residue [active] 398579001478 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 398579001479 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 398579001480 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 398579001481 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 398579001482 TPR motif; other site 398579001483 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 398579001484 binding surface 398579001485 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 398579001486 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 398579001487 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 398579001488 NosL; Region: NosL; pfam05573 398579001489 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 398579001490 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 398579001491 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398579001492 Walker A/P-loop; other site 398579001493 ATP binding site [chemical binding]; other site 398579001494 Q-loop/lid; other site 398579001495 ABC transporter signature motif; other site 398579001496 Walker B; other site 398579001497 D-loop; other site 398579001498 H-loop/switch region; other site 398579001499 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 398579001500 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398579001501 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 398579001502 DNA binding site [nucleotide binding] 398579001503 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 398579001504 LysE type translocator; Region: LysE; cl00565 398579001505 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 398579001506 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 398579001507 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 398579001508 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 398579001509 EamA-like transporter family; Region: EamA; pfam00892 398579001510 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 398579001511 RNA polymerase sigma factor SigZ; Provisional; Region: PRK09637 398579001512 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398579001513 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398579001514 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 398579001515 C-terminal domain interface [polypeptide binding]; other site 398579001516 GSH binding site (G-site) [chemical binding]; other site 398579001517 dimer interface [polypeptide binding]; other site 398579001518 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 398579001519 N-terminal domain interface [polypeptide binding]; other site 398579001520 dimer interface [polypeptide binding]; other site 398579001521 substrate binding pocket (H-site) [chemical binding]; other site 398579001522 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 398579001523 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 398579001524 active site residue [active] 398579001525 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 398579001526 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 398579001527 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 398579001528 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 398579001529 binding surface 398579001530 TPR motif; other site 398579001531 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 398579001532 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 398579001533 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 398579001534 NosL; Region: NosL; pfam05573 398579001535 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 398579001536 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398579001537 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 398579001538 Walker A/P-loop; other site 398579001539 ATP binding site [chemical binding]; other site 398579001540 Q-loop/lid; other site 398579001541 ABC transporter signature motif; other site 398579001542 Walker B; other site 398579001543 D-loop; other site 398579001544 H-loop/switch region; other site 398579001545 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 398579001546 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398579001547 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 398579001548 DNA binding site [nucleotide binding] 398579001549 D-ribose pyranase; Provisional; Region: PRK11797 398579001550 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 398579001551 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 398579001552 Walker A/P-loop; other site 398579001553 ATP binding site [chemical binding]; other site 398579001554 Q-loop/lid; other site 398579001555 ABC transporter signature motif; other site 398579001556 Walker B; other site 398579001557 D-loop; other site 398579001558 H-loop/switch region; other site 398579001559 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 398579001560 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398579001561 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398579001562 TM-ABC transporter signature motif; other site 398579001563 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 398579001564 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 398579001565 ligand binding site [chemical binding]; other site 398579001566 dimerization interface [polypeptide binding]; other site 398579001567 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398579001568 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 398579001569 substrate binding site [chemical binding]; other site 398579001570 dimer interface [polypeptide binding]; other site 398579001571 ATP binding site [chemical binding]; other site 398579001572 transcriptional repressor RbsR; Provisional; Region: PRK10423 398579001573 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398579001574 DNA binding site [nucleotide binding] 398579001575 domain linker motif; other site 398579001576 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 398579001577 dimerization interface [polypeptide binding]; other site 398579001578 ligand binding site [chemical binding]; other site 398579001579 FMN reductase; Validated; Region: fre; PRK08051 398579001580 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 398579001581 FAD binding pocket [chemical binding]; other site 398579001582 FAD binding motif [chemical binding]; other site 398579001583 phosphate binding motif [ion binding]; other site 398579001584 beta-alpha-beta structure motif; other site 398579001585 NAD binding pocket [chemical binding]; other site 398579001586 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 398579001587 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 398579001588 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398579001589 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398579001590 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 398579001591 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398579001592 catalytic residues [active] 398579001593 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 398579001594 aromatic amino acid transport protein; Region: araaP; TIGR00837 398579001595 glutamate dehydrogenase; Provisional; Region: PRK09414 398579001596 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 398579001597 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 398579001598 NAD(P) binding site [chemical binding]; other site 398579001599 Protein of unknown function (DUF2388); Region: DUF2388; cl09731 398579001600 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 398579001601 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 398579001602 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 398579001603 catalytic residues [active] 398579001604 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398579001605 NAD(P) binding site [chemical binding]; other site 398579001606 active site 398579001607 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 398579001608 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 398579001609 carboxyltransferase (CT) interaction site; other site 398579001610 biotinylation site [posttranslational modification]; other site 398579001611 Dehydroquinase class II; Region: DHquinase_II; pfam01220 398579001612 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 398579001613 active site 398579001614 trimer interface [polypeptide binding]; other site 398579001615 dimer interface [polypeptide binding]; other site 398579001616 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 398579001617 hypothetical protein; Provisional; Region: PRK09256 398579001618 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 398579001619 Protein of unknown function (DUF3012); Region: DUF3012; pfam11216 398579001620 Outer membrane efflux protein; Region: OEP; pfam02321 398579001621 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 398579001622 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398579001623 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398579001624 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579001625 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 398579001626 Protein export membrane protein; Region: SecD_SecF; cl14618 398579001627 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 398579001628 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 398579001629 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 398579001630 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398579001631 catalytic residue [active] 398579001632 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 398579001633 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 398579001634 active site residue [active] 398579001635 Putative phosphatase (DUF442); Region: DUF442; cl17385 398579001636 Domain of unknown function (DUF386); Region: DUF386; cl01047 398579001637 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 398579001638 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 398579001639 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 398579001640 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 398579001641 active site 398579001642 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 398579001643 metal binding site [ion binding]; metal-binding site 398579001644 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 398579001645 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 398579001646 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 398579001647 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 398579001648 NADP binding site [chemical binding]; other site 398579001649 active site 398579001650 putative substrate binding site [chemical binding]; other site 398579001651 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398579001652 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579001653 ATP binding site [chemical binding]; other site 398579001654 Mg2+ binding site [ion binding]; other site 398579001655 G-X-G motif; other site 398579001656 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 398579001657 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579001658 active site 398579001659 phosphorylation site [posttranslational modification] 398579001660 intermolecular recognition site; other site 398579001661 dimerization interface [polypeptide binding]; other site 398579001662 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398579001663 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 398579001664 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 398579001665 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398579001666 NAD(P) binding site [chemical binding]; other site 398579001667 active site 398579001668 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579001669 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579001670 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 398579001671 putative effector binding pocket; other site 398579001672 dimerization interface [polypeptide binding]; other site 398579001673 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 398579001674 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 398579001675 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 398579001676 dimerization interface [polypeptide binding]; other site 398579001677 DNA binding site [nucleotide binding] 398579001678 corepressor binding sites; other site 398579001679 O-succinylhomoserine (thiol)-lyase; Region: O_succ_thio_ly; TIGR02080 398579001680 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 398579001681 homodimer interface [polypeptide binding]; other site 398579001682 substrate-cofactor binding pocket; other site 398579001683 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579001684 catalytic residue [active] 398579001685 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 398579001686 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 398579001687 nucleotide binding site [chemical binding]; other site 398579001688 substrate binding site [chemical binding]; other site 398579001689 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 398579001690 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 398579001691 FAD binding site [chemical binding]; other site 398579001692 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 398579001693 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 398579001694 EamA-like transporter family; Region: EamA; pfam00892 398579001695 EamA-like transporter family; Region: EamA; pfam00892 398579001696 helicase 45; Provisional; Region: PTZ00424 398579001697 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 398579001698 ATP binding site [chemical binding]; other site 398579001699 Mg++ binding site [ion binding]; other site 398579001700 motif III; other site 398579001701 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 398579001702 nucleotide binding region [chemical binding]; other site 398579001703 ATP-binding site [chemical binding]; other site 398579001704 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 398579001705 M28 Zn-Peptidases; Region: M28_like_2; cd05662 398579001706 Peptidase family M28; Region: Peptidase_M28; pfam04389 398579001707 metal binding site [ion binding]; metal-binding site 398579001708 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 398579001709 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 398579001710 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 398579001711 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 398579001712 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 398579001713 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398579001714 putative substrate translocation pore; other site 398579001715 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 398579001716 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 398579001717 dimer interface [polypeptide binding]; other site 398579001718 ssDNA binding site [nucleotide binding]; other site 398579001719 tetramer (dimer of dimers) interface [polypeptide binding]; other site 398579001720 Integrase core domain; Region: rve; pfam00665 398579001721 Integrase core domain; Region: rve_3; pfam13683 398579001722 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 398579001723 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398579001724 substrate binding pocket [chemical binding]; other site 398579001725 membrane-bound complex binding site; other site 398579001726 hinge residues; other site 398579001727 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 398579001728 active site 398579001729 catalytic residues [active] 398579001730 galactokinase; Provisional; Region: PRK05101 398579001731 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 398579001732 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 398579001733 putative transporter; Provisional; Region: PRK10484 398579001734 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 398579001735 Na binding site [ion binding]; other site 398579001736 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 398579001737 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 398579001738 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 398579001739 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 398579001740 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 398579001741 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 398579001742 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 398579001743 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 398579001744 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 398579001745 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 398579001746 TrkA-N domain; Region: TrkA_N; pfam02254 398579001747 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 398579001748 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 398579001749 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 398579001750 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 398579001751 DsbD alpha interface [polypeptide binding]; other site 398579001752 catalytic residues [active] 398579001753 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 398579001754 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 398579001755 Catalytic domain of Protein Kinases; Region: PKc; cd00180 398579001756 active site 398579001757 ATP binding site [chemical binding]; other site 398579001758 substrate binding site [chemical binding]; other site 398579001759 activation loop (A-loop); other site 398579001760 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 398579001761 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398579001762 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 398579001763 eyelet of channel; other site 398579001764 trimer interface [polypeptide binding]; other site 398579001765 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398579001766 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 398579001767 eyelet of channel; other site 398579001768 trimer interface [polypeptide binding]; other site 398579001769 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 398579001770 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 398579001771 putative ATP binding site [chemical binding]; other site 398579001772 putative substrate interface [chemical binding]; other site 398579001773 Superinfection exclusion protein B; Region: SieB; pfam14163 398579001774 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 398579001775 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 398579001776 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398579001777 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 398579001778 Peptidase family M50; Region: Peptidase_M50; pfam02163 398579001779 active site 398579001780 putative substrate binding region [chemical binding]; other site 398579001781 Protein of unknown function (DUF342); Region: DUF342; pfam03961 398579001782 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 398579001783 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 398579001784 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 398579001785 S-adenosylmethionine binding site [chemical binding]; other site 398579001786 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 398579001787 dimer interface [polypeptide binding]; other site 398579001788 Alkaline phosphatase homologues; Region: alkPPc; smart00098 398579001789 active site 398579001790 glutathione synthetase; Provisional; Region: PRK05246 398579001791 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 398579001792 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 398579001793 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 398579001794 RNA methyltransferase, RsmE family; Region: TIGR00046 398579001795 DNA-specific endonuclease I; Provisional; Region: PRK15137 398579001796 Endonuclease I; Region: Endonuclease_1; pfam04231 398579001797 hypothetical protein; Provisional; Region: PRK04860 398579001798 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 398579001799 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cl00237 398579001800 putative substrate binding pocket [chemical binding]; other site 398579001801 AC domain interface; other site 398579001802 catalytic triad [active] 398579001803 AB domain interface; other site 398579001804 LysR family transcriptional regulator; Provisional; Region: PRK14997 398579001805 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579001806 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 398579001807 putative effector binding pocket; other site 398579001808 dimerization interface [polypeptide binding]; other site 398579001809 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 398579001810 acetyl-CoA carboxylase, carboxyl transferase, beta subunit; Region: accD; TIGR00515 398579001811 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 398579001812 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398579001813 ATP-grasp domain; Region: ATP-grasp_4; cl17255 398579001814 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 398579001815 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 398579001816 carboxyltransferase (CT) interaction site; other site 398579001817 biotinylation site [posttranslational modification]; other site 398579001818 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 398579001819 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 398579001820 Protein of unknown function (DUF707); Region: DUF707; pfam05212 398579001821 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 398579001822 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398579001823 UDP-galactopyranose mutase; Region: GLF; pfam03275 398579001824 Sporulation related domain; Region: SPOR; pfam05036 398579001825 Domain of unknown function (DUF4402); Region: DUF4402; pfam14352 398579001826 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 398579001827 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 398579001828 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 398579001829 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 398579001830 Sporulation related domain; Region: SPOR; pfam05036 398579001831 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 398579001832 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398579001833 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398579001834 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 398579001835 Ligand Binding Site [chemical binding]; other site 398579001836 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 398579001837 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 398579001838 4Fe-4S binding domain; Region: Fer4_5; pfam12801 398579001839 4Fe-4S binding domain; Region: Fer4_5; pfam12801 398579001840 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 398579001841 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 398579001842 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 398579001843 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 398579001844 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 398579001845 [4Fe-4S] binding site [ion binding]; other site 398579001846 molybdopterin cofactor binding site; other site 398579001847 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 398579001848 molybdopterin cofactor binding site; other site 398579001849 NapD protein; Region: NapD; pfam03927 398579001850 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 398579001851 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 398579001852 FtsX-like permease family; Region: FtsX; pfam02687 398579001853 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398579001854 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398579001855 Walker A/P-loop; other site 398579001856 ATP binding site [chemical binding]; other site 398579001857 Q-loop/lid; other site 398579001858 ABC transporter signature motif; other site 398579001859 Walker B; other site 398579001860 D-loop; other site 398579001861 H-loop/switch region; other site 398579001862 Cache domain; Region: Cache_1; pfam02743 398579001863 PAS domain; Region: PAS_9; pfam13426 398579001864 PAS domain S-box; Region: sensory_box; TIGR00229 398579001865 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 398579001866 putative active site [active] 398579001867 heme pocket [chemical binding]; other site 398579001868 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 398579001869 PAS fold; Region: PAS_3; pfam08447 398579001870 putative active site [active] 398579001871 heme pocket [chemical binding]; other site 398579001872 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 398579001873 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398579001874 putative active site [active] 398579001875 heme pocket [chemical binding]; other site 398579001876 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 398579001877 putative active site [active] 398579001878 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398579001879 heme pocket [chemical binding]; other site 398579001880 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 398579001881 dimer interface [polypeptide binding]; other site 398579001882 phosphorylation site [posttranslational modification] 398579001883 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579001884 ATP binding site [chemical binding]; other site 398579001885 Mg2+ binding site [ion binding]; other site 398579001886 G-X-G motif; other site 398579001887 Response regulator receiver domain; Region: Response_reg; pfam00072 398579001888 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579001889 active site 398579001890 phosphorylation site [posttranslational modification] 398579001891 intermolecular recognition site; other site 398579001892 dimerization interface [polypeptide binding]; other site 398579001893 Response regulator receiver domain; Region: Response_reg; pfam00072 398579001894 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579001895 active site 398579001896 phosphorylation site [posttranslational modification] 398579001897 intermolecular recognition site; other site 398579001898 dimerization interface [polypeptide binding]; other site 398579001899 Hpt domain; Region: Hpt; pfam01627 398579001900 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 398579001901 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579001902 active site 398579001903 phosphorylation site [posttranslational modification] 398579001904 intermolecular recognition site; other site 398579001905 dimerization interface [polypeptide binding]; other site 398579001906 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398579001907 Zn2+ binding site [ion binding]; other site 398579001908 Mg2+ binding site [ion binding]; other site 398579001909 putative global regulator; Reviewed; Region: PRK09559 398579001910 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 398579001911 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 398579001912 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 398579001913 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 398579001914 ligand binding site [chemical binding]; other site 398579001915 NAD binding site [chemical binding]; other site 398579001916 tetramer interface [polypeptide binding]; other site 398579001917 catalytic site [active] 398579001918 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 398579001919 L-serine binding site [chemical binding]; other site 398579001920 ACT domain interface; other site 398579001921 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 398579001922 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398579001923 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 398579001924 DNA binding residues [nucleotide binding] 398579001925 dimerization interface [polypeptide binding]; other site 398579001926 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 398579001927 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 398579001928 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 398579001929 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 398579001930 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 398579001931 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 398579001932 CoenzymeA binding site [chemical binding]; other site 398579001933 subunit interaction site [polypeptide binding]; other site 398579001934 PHB binding site; other site 398579001935 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 398579001936 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 398579001937 tetramer interface [polypeptide binding]; other site 398579001938 heme binding pocket [chemical binding]; other site 398579001939 NADPH binding site [chemical binding]; other site 398579001940 Predicted membrane protein [Function unknown]; Region: COG2119 398579001941 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 398579001942 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 398579001943 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 398579001944 aromatic amino acid transport protein; Region: araaP; TIGR00837 398579001945 Peptidase S46; Region: Peptidase_S46; pfam10459 398579001946 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 398579001947 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 398579001948 putative acyl-acceptor binding pocket; other site 398579001949 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 398579001950 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 398579001951 putative ribose interaction site [chemical binding]; other site 398579001952 putative ADP binding site [chemical binding]; other site 398579001953 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 398579001954 active site 398579001955 nucleotide binding site [chemical binding]; other site 398579001956 HIGH motif; other site 398579001957 KMSKS motif; other site 398579001958 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398579001959 MltA-interacting protein MipA; Region: MipA; cl01504 398579001960 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 398579001961 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 398579001962 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 398579001963 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 398579001964 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 398579001965 ligand binding site [chemical binding]; other site 398579001966 homodimer interface [polypeptide binding]; other site 398579001967 NAD(P) binding site [chemical binding]; other site 398579001968 trimer interface B [polypeptide binding]; other site 398579001969 trimer interface A [polypeptide binding]; other site 398579001970 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 398579001971 Flavodoxin; Region: Flavodoxin_1; pfam00258 398579001972 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 398579001973 FAD binding pocket [chemical binding]; other site 398579001974 FAD binding motif [chemical binding]; other site 398579001975 catalytic residues [active] 398579001976 NAD binding pocket [chemical binding]; other site 398579001977 phosphate binding motif [ion binding]; other site 398579001978 beta-alpha-beta structure motif; other site 398579001979 sulfite reductase subunit beta; Provisional; Region: PRK13504 398579001980 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 398579001981 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 398579001982 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 398579001983 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 398579001984 Active Sites [active] 398579001985 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 398579001986 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 398579001987 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 398579001988 catalytic triad [active] 398579001989 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 398579001990 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 398579001991 ATP binding site [chemical binding]; other site 398579001992 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 398579001993 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 398579001994 dimerization interface [polypeptide binding]; other site 398579001995 substrate binding site [chemical binding]; other site 398579001996 active site 398579001997 calcium binding site [ion binding]; other site 398579001998 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 398579001999 active site 398579002000 SAM binding site [chemical binding]; other site 398579002001 homodimer interface [polypeptide binding]; other site 398579002002 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 398579002003 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 398579002004 Active Sites [active] 398579002005 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 398579002006 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 398579002007 CysD dimerization site [polypeptide binding]; other site 398579002008 G1 box; other site 398579002009 putative GEF interaction site [polypeptide binding]; other site 398579002010 GTP/Mg2+ binding site [chemical binding]; other site 398579002011 Switch I region; other site 398579002012 G2 box; other site 398579002013 G3 box; other site 398579002014 Switch II region; other site 398579002015 G4 box; other site 398579002016 G5 box; other site 398579002017 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 398579002018 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 398579002019 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 398579002020 TrkA-C domain; Region: TrkA_C; pfam02080 398579002021 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 398579002022 TrkA-C domain; Region: TrkA_C; pfam02080 398579002023 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 398579002024 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 398579002025 ligand-binding site [chemical binding]; other site 398579002026 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 398579002027 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398579002028 Coenzyme A binding pocket [chemical binding]; other site 398579002029 TIGR03899 family protein; Region: TIGR03899 398579002030 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398579002031 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 398579002032 putative substrate translocation pore; other site 398579002033 Imelysin; Region: Peptidase_M75; pfam09375 398579002034 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 398579002035 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 398579002036 Flavodoxin domain; Region: Flavodoxin_5; cl17428 398579002037 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 398579002038 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 398579002039 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 398579002040 RNA binding surface [nucleotide binding]; other site 398579002041 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 398579002042 active site 398579002043 Herpesvirus latent membrane protein 1 (LMP1); Region: Herpes_LMP1; pfam05297 398579002044 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 398579002045 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 398579002046 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398579002047 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 398579002048 binding surface 398579002049 TPR motif; other site 398579002050 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398579002051 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579002052 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579002053 metal binding site [ion binding]; metal-binding site 398579002054 active site 398579002055 I-site; other site 398579002056 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398579002057 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 398579002058 eyelet of channel; other site 398579002059 trimer interface [polypeptide binding]; other site 398579002060 Integrase core domain; Region: rve; pfam00665 398579002061 Integrase core domain; Region: rve_3; pfam13683 398579002062 Uncharacterized conserved protein [Function unknown]; Region: COG2968 398579002063 oxidative stress defense protein; Provisional; Region: PRK11087 398579002064 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 398579002065 putative FMN binding site [chemical binding]; other site 398579002066 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 398579002067 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 398579002068 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 398579002069 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 398579002070 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398579002071 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398579002072 aromatic acid decarboxylase; Validated; Region: PRK05920 398579002073 Flavoprotein; Region: Flavoprotein; pfam02441 398579002074 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398579002075 active site 398579002076 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 398579002077 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398579002078 Walker A/P-loop; other site 398579002079 ATP binding site [chemical binding]; other site 398579002080 Q-loop/lid; other site 398579002081 ABC transporter signature motif; other site 398579002082 Walker B; other site 398579002083 D-loop; other site 398579002084 H-loop/switch region; other site 398579002085 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 398579002086 inner membrane transport permease; Provisional; Region: PRK15066 398579002087 protein structure with unknown function; Region: DUF4144; pfam13642 398579002088 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 398579002089 pantoate--beta-alanine ligase; Region: panC; TIGR00018 398579002090 Pantoate-beta-alanine ligase; Region: PanC; cd00560 398579002091 active site 398579002092 ATP-binding site [chemical binding]; other site 398579002093 pantoate-binding site; other site 398579002094 HXXH motif; other site 398579002095 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 398579002096 oligomerization interface [polypeptide binding]; other site 398579002097 active site 398579002098 metal binding site [ion binding]; metal-binding site 398579002099 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 398579002100 catalytic center binding site [active] 398579002101 ATP binding site [chemical binding]; other site 398579002102 poly(A) polymerase; Region: pcnB; TIGR01942 398579002103 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 398579002104 active site 398579002105 NTP binding site [chemical binding]; other site 398579002106 metal binding triad [ion binding]; metal-binding site 398579002107 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 398579002108 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 398579002109 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 398579002110 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 398579002111 active site 398579002112 HIGH motif; other site 398579002113 nucleotide binding site [chemical binding]; other site 398579002114 active site 398579002115 KMSKS motif; other site 398579002116 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 398579002117 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 398579002118 aminopeptidase B; Provisional; Region: PRK05015 398579002119 Peptidase; Region: DUF3663; pfam12404 398579002120 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 398579002121 interface (dimer of trimers) [polypeptide binding]; other site 398579002122 Substrate-binding/catalytic site; other site 398579002123 Zn-binding sites [ion binding]; other site 398579002124 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 398579002125 DNA binding site [nucleotide binding] 398579002126 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398579002127 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579002128 active site 398579002129 phosphorylation site [posttranslational modification] 398579002130 intermolecular recognition site; other site 398579002131 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 398579002132 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 398579002133 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 398579002134 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 398579002135 ATP binding site [chemical binding]; other site 398579002136 putative Mg++ binding site [ion binding]; other site 398579002137 helicase superfamily c-terminal domain; Region: HELICc; smart00490 398579002138 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 398579002139 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 398579002140 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 398579002141 Transglycosylase; Region: Transgly; pfam00912 398579002142 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 398579002143 putative arabinose transporter; Provisional; Region: PRK03545 398579002144 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 398579002145 putative substrate translocation pore; other site 398579002146 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 398579002147 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398579002148 Coenzyme A binding pocket [chemical binding]; other site 398579002149 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 398579002150 FMN-binding domain; Region: FMN_bind; pfam04205 398579002151 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 398579002152 Gram-negative porin; Region: Porin_4; pfam13609 398579002153 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 398579002154 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 398579002155 N-terminal plug; other site 398579002156 ligand-binding site [chemical binding]; other site 398579002157 Protein of unknown function (DUF3581); Region: DUF3581; pfam12119 398579002158 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 398579002159 amino acid carrier protein; Region: agcS; TIGR00835 398579002160 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 398579002161 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398579002162 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 398579002163 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398579002164 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579002165 active site 398579002166 phosphorylation site [posttranslational modification] 398579002167 intermolecular recognition site; other site 398579002168 dimerization interface [polypeptide binding]; other site 398579002169 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 398579002170 Walker A motif; other site 398579002171 ATP binding site [chemical binding]; other site 398579002172 Walker B motif; other site 398579002173 arginine finger; other site 398579002174 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398579002175 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 398579002176 substrate binding pocket [chemical binding]; other site 398579002177 membrane-bound complex binding site; other site 398579002178 hinge residues; other site 398579002179 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398579002180 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 398579002181 dimer interface [polypeptide binding]; other site 398579002182 phosphorylation site [posttranslational modification] 398579002183 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579002184 ATP binding site [chemical binding]; other site 398579002185 Mg2+ binding site [ion binding]; other site 398579002186 G-X-G motif; other site 398579002187 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 398579002188 heme-binding residues [chemical binding]; other site 398579002189 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 398579002190 L-aspartate oxidase; Provisional; Region: PRK06175 398579002191 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398579002192 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 398579002193 catalytic site [active] 398579002194 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 398579002195 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 398579002196 ligand binding site [chemical binding]; other site 398579002197 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 398579002198 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 398579002199 Walker A/P-loop; other site 398579002200 ATP binding site [chemical binding]; other site 398579002201 Q-loop/lid; other site 398579002202 ABC transporter signature motif; other site 398579002203 Walker B; other site 398579002204 D-loop; other site 398579002205 H-loop/switch region; other site 398579002206 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 398579002207 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398579002208 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 398579002209 TM-ABC transporter signature motif; other site 398579002210 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398579002211 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 398579002212 TM-ABC transporter signature motif; other site 398579002213 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 398579002214 AMP binding site [chemical binding]; other site 398579002215 metal binding site [ion binding]; metal-binding site 398579002216 active site 398579002217 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 398579002218 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398579002219 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 398579002220 two-component response regulator; Provisional; Region: PRK11173 398579002221 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579002222 active site 398579002223 phosphorylation site [posttranslational modification] 398579002224 intermolecular recognition site; other site 398579002225 dimerization interface [polypeptide binding]; other site 398579002226 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 398579002227 DNA binding site [nucleotide binding] 398579002228 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 398579002229 aspartate kinase III; Validated; Region: PRK09084 398579002230 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 398579002231 nucleotide binding site [chemical binding]; other site 398579002232 substrate binding site [chemical binding]; other site 398579002233 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 398579002234 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 398579002235 dimer interface [polypeptide binding]; other site 398579002236 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 398579002237 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 398579002238 active site 398579002239 Zn binding site [ion binding]; other site 398579002240 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 398579002241 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 398579002242 putative DNA binding site [nucleotide binding]; other site 398579002243 putative Zn2+ binding site [ion binding]; other site 398579002244 AsnC family; Region: AsnC_trans_reg; pfam01037 398579002245 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 398579002246 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 398579002247 active site 398579002248 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 398579002249 S-adenosylmethionine binding site [chemical binding]; other site 398579002250 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 398579002251 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 398579002252 putative ligand binding site [chemical binding]; other site 398579002253 putative NAD binding site [chemical binding]; other site 398579002254 catalytic site [active] 398579002255 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 398579002256 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 398579002257 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 398579002258 peroxiredoxin; Region: AhpC; TIGR03137 398579002259 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 398579002260 dimer interface [polypeptide binding]; other site 398579002261 decamer (pentamer of dimers) interface [polypeptide binding]; other site 398579002262 catalytic triad [active] 398579002263 peroxidatic and resolving cysteines [active] 398579002264 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 398579002265 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 398579002266 catalytic residue [active] 398579002267 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 398579002268 catalytic residues [active] 398579002269 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398579002270 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398579002271 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579002272 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579002273 metal binding site [ion binding]; metal-binding site 398579002274 active site 398579002275 I-site; other site 398579002276 Thiol-disulfide isomerase and thioredoxins [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: TrxA; COG0526 398579002277 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 398579002278 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 398579002279 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 398579002280 Chromate transporter; Region: Chromate_transp; pfam02417 398579002281 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 398579002282 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 398579002283 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398579002284 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 398579002285 4Fe-4S binding domain; Region: Fer4; pfam00037 398579002286 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 398579002287 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 398579002288 [4Fe-4S] binding site [ion binding]; other site 398579002289 molybdopterin cofactor binding site; other site 398579002290 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 398579002291 molybdopterin cofactor binding site; other site 398579002292 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 398579002293 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 398579002294 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 398579002295 Ion transport protein; Region: Ion_trans; pfam00520 398579002296 Ion channel; Region: Ion_trans_2; pfam07885 398579002297 This domain is found in peptide chain release factors; Region: PCRF; smart00937 398579002298 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 398579002299 RF-1 domain; Region: RF-1; pfam00472 398579002300 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 398579002301 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 398579002302 dimer interface [polypeptide binding]; other site 398579002303 putative anticodon binding site; other site 398579002304 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 398579002305 motif 1; other site 398579002306 active site 398579002307 motif 2; other site 398579002308 motif 3; other site 398579002309 PAS domain; Region: PAS_9; pfam13426 398579002310 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 398579002311 PAS domain; Region: PAS_9; pfam13426 398579002312 putative active site [active] 398579002313 heme pocket [chemical binding]; other site 398579002314 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579002315 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579002316 metal binding site [ion binding]; metal-binding site 398579002317 active site 398579002318 I-site; other site 398579002319 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 398579002320 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 398579002321 pseudouridine synthase; Region: TIGR00093 398579002322 active site 398579002323 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 398579002324 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 398579002325 active site 398579002326 trimer interface [polypeptide binding]; other site 398579002327 allosteric site; other site 398579002328 active site lid [active] 398579002329 hexamer (dimer of trimers) interface [polypeptide binding]; other site 398579002330 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 398579002331 putative hydrophobic ligand binding site [chemical binding]; other site 398579002332 Iodotyrosine dehalogenase catalyzes the removal of iodine from the 3, 5 positions of L-tyosine in thyroid, liver and kidney, using NADPH as electron donor. This enzyme is a homolog of the nitroreductase family. These enzymes are usually homodimers; Region: iodotyrosine_dehalogenase; cd02144 398579002333 putative FMN binding site [chemical binding]; other site 398579002334 putative dimer interface [polypeptide binding]; other site 398579002335 nif11 domain/cupin domain protein; Region: nif11_cupin; TIGR03890 398579002336 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 398579002337 Peptidase family U32; Region: Peptidase_U32; pfam01136 398579002338 Collagenase; Region: DUF3656; pfam12392 398579002339 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 398579002340 pentamer interface [polypeptide binding]; other site 398579002341 dodecaamer interface [polypeptide binding]; other site 398579002342 Fe-S metabolism associated domain; Region: SufE; cl00951 398579002343 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 398579002344 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 398579002345 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398579002346 catalytic residue [active] 398579002347 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 398579002348 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398579002349 active site 398579002350 catalytic tetrad [active] 398579002351 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398579002352 MarR family; Region: MarR; pfam01047 398579002353 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398579002354 Coenzyme A binding pocket [chemical binding]; other site 398579002355 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 398579002356 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 398579002357 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 398579002358 serine transporter; Region: stp; TIGR00814 398579002359 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 398579002360 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 398579002361 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 398579002362 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 398579002363 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398579002364 Coenzyme A binding pocket [chemical binding]; other site 398579002365 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398579002366 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 398579002367 META domain; Region: META; pfam03724 398579002368 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579002369 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579002370 I-site; other site 398579002371 active site 398579002372 metal binding site [ion binding]; metal-binding site 398579002373 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 398579002374 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398579002375 Coenzyme A binding pocket [chemical binding]; other site 398579002376 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 398579002377 S-adenosylmethionine synthetase; Validated; Region: PRK05250 398579002378 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 398579002379 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 398579002380 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 398579002381 transketolase; Reviewed; Region: PRK12753 398579002382 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 398579002383 TPP-binding site [chemical binding]; other site 398579002384 dimer interface [polypeptide binding]; other site 398579002385 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 398579002386 PYR/PP interface [polypeptide binding]; other site 398579002387 dimer interface [polypeptide binding]; other site 398579002388 TPP binding site [chemical binding]; other site 398579002389 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398579002390 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 398579002391 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 398579002392 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 398579002393 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 398579002394 Phosphoglycerate kinase; Region: PGK; pfam00162 398579002395 substrate binding site [chemical binding]; other site 398579002396 hinge regions; other site 398579002397 ADP binding site [chemical binding]; other site 398579002398 catalytic site [active] 398579002399 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 398579002400 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 398579002401 intersubunit interface [polypeptide binding]; other site 398579002402 active site 398579002403 zinc binding site [ion binding]; other site 398579002404 Na+ binding site [ion binding]; other site 398579002405 Protein of unknown function, DUF481; Region: DUF481; pfam04338 398579002406 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 398579002407 Kinase associated protein B; Region: KapB; pfam08810 398579002408 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 398579002409 PAS domain; Region: PAS_9; pfam13426 398579002410 putative active site [active] 398579002411 heme pocket [chemical binding]; other site 398579002412 PAS domain; Region: PAS_9; pfam13426 398579002413 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579002414 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579002415 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 398579002416 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 398579002417 FeS/SAM binding site; other site 398579002418 Integrase core domain; Region: rve; pfam00665 398579002419 Integrase core domain; Region: rve_3; pfam13683 398579002420 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398579002421 Protein export membrane protein; Region: SecD_SecF; cl14618 398579002422 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398579002423 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579002424 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 398579002425 DEAD-like helicases superfamily; Region: DEXDc; smart00487 398579002426 ATP binding site [chemical binding]; other site 398579002427 Mg++ binding site [ion binding]; other site 398579002428 motif III; other site 398579002429 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 398579002430 nucleotide binding region [chemical binding]; other site 398579002431 ATP-binding site [chemical binding]; other site 398579002432 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 398579002433 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 398579002434 S-adenosylmethionine binding site [chemical binding]; other site 398579002435 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 398579002436 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 398579002437 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 398579002438 active site 398579002439 Int/Topo IB signature motif; other site 398579002440 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 398579002441 dimerization domain [polypeptide binding]; other site 398579002442 dimer interface [polypeptide binding]; other site 398579002443 catalytic residues [active] 398579002444 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 398579002445 DHH family; Region: DHH; pfam01368 398579002446 DHHA1 domain; Region: DHHA1; pfam02272 398579002447 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398579002448 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 398579002449 putative DNA binding site [nucleotide binding]; other site 398579002450 putative Zn2+ binding site [ion binding]; other site 398579002451 AsnC family; Region: AsnC_trans_reg; pfam01037 398579002452 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 398579002453 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 398579002454 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 398579002455 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_31; cd04690 398579002456 nudix motif; other site 398579002457 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 398579002458 hydroxyglutarate oxidase; Provisional; Region: PRK11728 398579002459 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398579002460 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 398579002461 conserved cys residue [active] 398579002462 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398579002463 LysE type translocator; Region: LysE; cl00565 398579002464 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 398579002465 tetramer (dimer of dimers) interface [polypeptide binding]; other site 398579002466 active site 398579002467 dimer interface [polypeptide binding]; other site 398579002468 Protein of unknown function (DUF808); Region: DUF808; pfam05661 398579002469 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 398579002470 putative catalytic site [active] 398579002471 putative metal binding site [ion binding]; other site 398579002472 putative phosphate binding site [ion binding]; other site 398579002473 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 398579002474 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 398579002475 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 398579002476 putative active site [active] 398579002477 putative metal binding site [ion binding]; other site 398579002478 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 398579002479 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398579002480 active site 398579002481 Phage shock protein B; Region: PspB; cl05946 398579002482 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 398579002483 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 398579002484 Zn binding site [ion binding]; other site 398579002485 uncharacterized proteobacterial lipoprotein; Region: lp_; TIGR02722 398579002486 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 398579002487 SlyX; Region: SlyX; pfam04102 398579002488 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 398579002489 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 398579002490 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 398579002491 Uncharacterized protein family (UPF0231); Region: UPF0231; pfam06062 398579002492 transcriptional regulator NarL; Provisional; Region: PRK10651 398579002493 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579002494 active site 398579002495 phosphorylation site [posttranslational modification] 398579002496 intermolecular recognition site; other site 398579002497 dimerization interface [polypeptide binding]; other site 398579002498 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 398579002499 DNA binding residues [nucleotide binding] 398579002500 dimerization interface [polypeptide binding]; other site 398579002501 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 398579002502 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 398579002503 HAMP domain; Region: HAMP; pfam00672 398579002504 Histidine kinase; Region: HisKA_3; pfam07730 398579002505 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579002506 ATP binding site [chemical binding]; other site 398579002507 Mg2+ binding site [ion binding]; other site 398579002508 G-X-G motif; other site 398579002509 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 398579002510 Isochorismatase family; Region: Isochorismatase; pfam00857 398579002511 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 398579002512 catalytic triad [active] 398579002513 dimer interface [polypeptide binding]; other site 398579002514 conserved cis-peptide bond; other site 398579002515 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 398579002516 Nitrogen regulatory protein P-II; Region: P-II; smart00938 398579002517 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 398579002518 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 398579002519 binding surface 398579002520 TPR motif; other site 398579002521 TPR repeat; Region: TPR_11; pfam13414 398579002522 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 398579002523 binding surface 398579002524 TPR motif; other site 398579002525 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 398579002526 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 398579002527 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398579002528 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 398579002529 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398579002530 Walker A/P-loop; other site 398579002531 ATP binding site [chemical binding]; other site 398579002532 Q-loop/lid; other site 398579002533 ABC transporter signature motif; other site 398579002534 Walker B; other site 398579002535 D-loop; other site 398579002536 H-loop/switch region; other site 398579002537 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 398579002538 catalytic core [active] 398579002539 ferredoxin-NADP reductase; Provisional; Region: PRK10926 398579002540 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 398579002541 FAD binding pocket [chemical binding]; other site 398579002542 FAD binding motif [chemical binding]; other site 398579002543 phosphate binding motif [ion binding]; other site 398579002544 beta-alpha-beta structure motif; other site 398579002545 NAD binding pocket [chemical binding]; other site 398579002546 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 398579002547 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 398579002548 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 398579002549 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 398579002550 dimer interface [polypeptide binding]; other site 398579002551 conserved gate region; other site 398579002552 putative PBP binding loops; other site 398579002553 ABC-ATPase subunit interface; other site 398579002554 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 398579002555 dimer interface [polypeptide binding]; other site 398579002556 conserved gate region; other site 398579002557 putative PBP binding loops; other site 398579002558 ABC-ATPase subunit interface; other site 398579002559 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 398579002560 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 398579002561 Walker A/P-loop; other site 398579002562 ATP binding site [chemical binding]; other site 398579002563 Q-loop/lid; other site 398579002564 ABC transporter signature motif; other site 398579002565 Walker B; other site 398579002566 D-loop; other site 398579002567 H-loop/switch region; other site 398579002568 TOBE domain; Region: TOBE_2; pfam08402 398579002569 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 398579002570 Cupin domain; Region: Cupin_2; cl17218 398579002571 arginine repressor; Provisional; Region: PRK05066 398579002572 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 398579002573 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 398579002574 malate dehydrogenase; Provisional; Region: PRK05086 398579002575 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 398579002576 NAD binding site [chemical binding]; other site 398579002577 dimerization interface [polypeptide binding]; other site 398579002578 Substrate binding site [chemical binding]; other site 398579002579 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 398579002580 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 398579002581 substrate binding pocket [chemical binding]; other site 398579002582 chain length determination region; other site 398579002583 substrate-Mg2+ binding site; other site 398579002584 catalytic residues [active] 398579002585 aspartate-rich region 1; other site 398579002586 active site lid residues [active] 398579002587 aspartate-rich region 2; other site 398579002588 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 398579002589 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 398579002590 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 398579002591 GTPase CgtA; Reviewed; Region: obgE; PRK12298 398579002592 GTP1/OBG; Region: GTP1_OBG; pfam01018 398579002593 Obg GTPase; Region: Obg; cd01898 398579002594 G1 box; other site 398579002595 GTP/Mg2+ binding site [chemical binding]; other site 398579002596 Switch I region; other site 398579002597 G2 box; other site 398579002598 G3 box; other site 398579002599 Switch II region; other site 398579002600 G4 box; other site 398579002601 G5 box; other site 398579002602 Uncharacterized conserved protein [Function unknown]; Region: COG2966 398579002603 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 398579002604 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 398579002605 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 398579002606 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 398579002607 NADP+ binding site [chemical binding]; other site 398579002608 folate binding site [chemical binding]; other site 398579002609 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 398579002610 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 398579002611 dimerization interface [polypeptide binding]; other site 398579002612 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398579002613 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398579002614 dimer interface [polypeptide binding]; other site 398579002615 putative CheW interface [polypeptide binding]; other site 398579002616 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 398579002617 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 398579002618 active site 398579002619 metal binding site [ion binding]; metal-binding site 398579002620 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 398579002621 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 398579002622 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 398579002623 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 398579002624 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 398579002625 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 398579002626 SurA N-terminal domain; Region: SurA_N; pfam09312 398579002627 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 398579002628 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 398579002629 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 398579002630 OstA-like protein; Region: OstA; cl00844 398579002631 Organic solvent tolerance protein; Region: OstA_C; pfam04453 398579002632 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 398579002633 Phosphotransferase enzyme family; Region: APH; pfam01636 398579002634 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 398579002635 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 398579002636 Substrate binding site; other site 398579002637 metal-binding site 398579002638 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 398579002639 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 398579002640 putative metal binding site [ion binding]; other site 398579002641 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 398579002642 HSP70 interaction site [polypeptide binding]; other site 398579002643 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 398579002644 glycerate dehydrogenase; Provisional; Region: PRK06487 398579002645 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 398579002646 putative ligand binding site [chemical binding]; other site 398579002647 putative NAD binding site [chemical binding]; other site 398579002648 catalytic site [active] 398579002649 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 398579002650 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 398579002651 NAD binding site [chemical binding]; other site 398579002652 ATP-grasp domain; Region: ATP-grasp; pfam02222 398579002653 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 398579002654 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 398579002655 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398579002656 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579002657 Ycf46; Provisional; Region: ycf46; CHL00195 398579002658 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 398579002659 Walker A motif; other site 398579002660 ATP binding site [chemical binding]; other site 398579002661 Walker B motif; other site 398579002662 arginine finger; other site 398579002663 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 398579002664 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 398579002665 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 398579002666 dimer interface [polypeptide binding]; other site 398579002667 phosphorylation site [posttranslational modification] 398579002668 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579002669 ATP binding site [chemical binding]; other site 398579002670 Mg2+ binding site [ion binding]; other site 398579002671 G-X-G motif; other site 398579002672 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 398579002673 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579002674 active site 398579002675 phosphorylation site [posttranslational modification] 398579002676 intermolecular recognition site; other site 398579002677 dimerization interface [polypeptide binding]; other site 398579002678 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 398579002679 DNA binding site [nucleotide binding] 398579002680 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 398579002681 MltA-interacting protein MipA; Region: MipA; cl01504 398579002682 putative acetyltransferase YhhY; Provisional; Region: PRK10140 398579002683 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398579002684 Coenzyme A binding pocket [chemical binding]; other site 398579002685 YcxB-like protein; Region: YcxB; pfam14317 398579002686 Domain of unknown function (DUF1971); Region: DUF1971; pfam09313 398579002687 universal stress protein UspE; Provisional; Region: PRK11175 398579002688 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 398579002689 Ligand Binding Site [chemical binding]; other site 398579002690 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 398579002691 Ligand Binding Site [chemical binding]; other site 398579002692 short chain dehydrogenase; Provisional; Region: PRK08251 398579002693 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398579002694 NAD(P) binding site [chemical binding]; other site 398579002695 active site 398579002696 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398579002697 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 398579002698 active site 398579002699 metal binding site [ion binding]; metal-binding site 398579002700 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398579002701 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 398579002702 Predicted transcriptional regulator [Transcription]; Region: COG2345 398579002703 HTH domain; Region: HTH_11; cl17392 398579002704 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 398579002705 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 398579002706 RNA binding surface [nucleotide binding]; other site 398579002707 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 398579002708 active site 398579002709 uracil binding [chemical binding]; other site 398579002710 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 398579002711 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 398579002712 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398579002713 putative substrate translocation pore; other site 398579002714 LrgB-like family; Region: LrgB; pfam04172 398579002715 LrgA family; Region: LrgA; pfam03788 398579002716 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579002717 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579002718 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 398579002719 dimerization interface [polypeptide binding]; other site 398579002720 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 398579002721 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 398579002722 AMMECR1; Region: AMMECR1; pfam01871 398579002723 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 398579002724 putative ligand binding pocket/active site [active] 398579002725 putative metal binding site [ion binding]; other site 398579002726 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 398579002727 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 398579002728 FeS/SAM binding site; other site 398579002729 Peptidase M60-like family; Region: M60-like; pfam13402 398579002730 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 398579002731 HAMP domain; Region: HAMP; pfam00672 398579002732 dimerization interface [polypeptide binding]; other site 398579002733 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398579002734 dimer interface [polypeptide binding]; other site 398579002735 putative CheW interface [polypeptide binding]; other site 398579002736 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 398579002737 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 398579002738 HIGH motif; other site 398579002739 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 398579002740 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 398579002741 active site 398579002742 KMSKS motif; other site 398579002743 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 398579002744 tRNA binding surface [nucleotide binding]; other site 398579002745 anticodon binding site; other site 398579002746 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 398579002747 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 398579002748 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 398579002749 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 398579002750 ATP binding site [chemical binding]; other site 398579002751 putative Mg++ binding site [ion binding]; other site 398579002752 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 398579002753 nucleotide binding region [chemical binding]; other site 398579002754 ATP-binding site [chemical binding]; other site 398579002755 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579002756 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579002757 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 398579002758 putative effector binding pocket; other site 398579002759 dimerization interface [polypeptide binding]; other site 398579002760 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 398579002761 putative catalytic residues [active] 398579002762 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 398579002763 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 398579002764 Domain of unknown function DUF21; Region: DUF21; pfam01595 398579002765 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 398579002766 Transporter associated domain; Region: CorC_HlyC; smart01091 398579002767 Response regulator receiver domain; Region: Response_reg; pfam00072 398579002768 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579002769 active site 398579002770 phosphorylation site [posttranslational modification] 398579002771 intermolecular recognition site; other site 398579002772 dimerization interface [polypeptide binding]; other site 398579002773 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 398579002774 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 398579002775 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398579002776 substrate binding pocket [chemical binding]; other site 398579002777 membrane-bound complex binding site; other site 398579002778 hinge residues; other site 398579002779 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 398579002780 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 398579002781 substrate binding pocket [chemical binding]; other site 398579002782 membrane-bound complex binding site; other site 398579002783 hinge residues; other site 398579002784 PAS fold; Region: PAS_3; pfam08447 398579002785 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 398579002786 dimer interface [polypeptide binding]; other site 398579002787 phosphorylation site [posttranslational modification] 398579002788 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579002789 ATP binding site [chemical binding]; other site 398579002790 Mg2+ binding site [ion binding]; other site 398579002791 G-X-G motif; other site 398579002792 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398579002793 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579002794 active site 398579002795 phosphorylation site [posttranslational modification] 398579002796 intermolecular recognition site; other site 398579002797 dimerization interface [polypeptide binding]; other site 398579002798 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 398579002799 putative binding surface; other site 398579002800 active site 398579002801 multifunctional aminopeptidase A; Provisional; Region: PRK00913 398579002802 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 398579002803 interface (dimer of trimers) [polypeptide binding]; other site 398579002804 Substrate-binding/catalytic site; other site 398579002805 Zn-binding sites [ion binding]; other site 398579002806 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 398579002807 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 398579002808 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 398579002809 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 398579002810 RDD family; Region: RDD; pfam06271 398579002811 Protein of unknown function (DUF2960); Region: DUF2960; pfam11173 398579002812 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 398579002813 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398579002814 Coenzyme A binding pocket [chemical binding]; other site 398579002815 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 398579002816 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 398579002817 active site 398579002818 Zn binding site [ion binding]; other site 398579002819 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 398579002820 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 398579002821 active site 398579002822 catalytic residues [active] 398579002823 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 398579002824 PA/protease or protease-like domain interface [polypeptide binding]; other site 398579002825 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 398579002826 catalytic residues [active] 398579002827 Protein of unknown function (DUF2913); Region: DUF2913; pfam11140 398579002828 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 398579002829 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 398579002830 ATP binding site [chemical binding]; other site 398579002831 Mg++ binding site [ion binding]; other site 398579002832 motif III; other site 398579002833 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 398579002834 nucleotide binding region [chemical binding]; other site 398579002835 ATP-binding site [chemical binding]; other site 398579002836 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 398579002837 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 398579002838 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 398579002839 active site 398579002840 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398579002841 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 398579002842 putative substrate translocation pore; other site 398579002843 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 398579002844 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 398579002845 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 398579002846 active site 398579002847 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 398579002848 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 398579002849 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 398579002850 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 398579002851 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398579002852 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398579002853 ligand binding site [chemical binding]; other site 398579002854 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 398579002855 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 398579002856 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 398579002857 DNA-binding site [nucleotide binding]; DNA binding site 398579002858 RNA-binding motif; other site 398579002859 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 398579002860 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 398579002861 dimerization interface [polypeptide binding]; other site 398579002862 putative DNA binding site [nucleotide binding]; other site 398579002863 putative Zn2+ binding site [ion binding]; other site 398579002864 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 398579002865 CoenzymeA binding site [chemical binding]; other site 398579002866 subunit interaction site [polypeptide binding]; other site 398579002867 PHB binding site; other site 398579002868 Domain of unknown function (DUF368); Region: DUF368; pfam04018 398579002869 Protein of unknown function (DUF3634); Region: DUF3634; pfam12321 398579002870 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 398579002871 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 398579002872 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 398579002873 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 398579002874 tetrameric interface [polypeptide binding]; other site 398579002875 NAD binding site [chemical binding]; other site 398579002876 catalytic residues [active] 398579002877 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 398579002878 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 398579002879 inhibitor-cofactor binding pocket; inhibition site 398579002880 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579002881 catalytic residue [active] 398579002882 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 398579002883 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 398579002884 NAD(P) binding site [chemical binding]; other site 398579002885 catalytic residues [active] 398579002886 Helix-Turn-Helix DNA binding domain of the Cfa transcription regulator; Region: HTH_Cfa; cd04789 398579002887 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 398579002888 DNA binding residues [nucleotide binding] 398579002889 putative dimer interface [polypeptide binding]; other site 398579002890 Methyltransferase domain; Region: Methyltransf_31; pfam13847 398579002891 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 398579002892 S-adenosylmethionine binding site [chemical binding]; other site 398579002893 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 398579002894 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398579002895 Coenzyme A binding pocket [chemical binding]; other site 398579002896 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 398579002897 putative active site [active] 398579002898 putative metal binding residues [ion binding]; other site 398579002899 signature motif; other site 398579002900 putative triphosphate binding site [ion binding]; other site 398579002901 dimer interface [polypeptide binding]; other site 398579002902 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 398579002903 aspartate racemase; Region: asp_race; TIGR00035 398579002904 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 398579002905 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398579002906 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 398579002907 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 398579002908 non-specific DNA binding site [nucleotide binding]; other site 398579002909 salt bridge; other site 398579002910 sequence-specific DNA binding site [nucleotide binding]; other site 398579002911 Cupin domain; Region: Cupin_2; pfam07883 398579002912 Peptidase C26; Region: Peptidase_C26; pfam07722 398579002913 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 398579002914 catalytic triad [active] 398579002915 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 398579002916 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 398579002917 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 398579002918 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 398579002919 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 398579002920 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398579002921 Walker A/P-loop; other site 398579002922 ATP binding site [chemical binding]; other site 398579002923 Q-loop/lid; other site 398579002924 ABC transporter signature motif; other site 398579002925 Walker B; other site 398579002926 D-loop; other site 398579002927 H-loop/switch region; other site 398579002928 TOBE domain; Region: TOBE_2; pfam08402 398579002929 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 398579002930 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 398579002931 dimer interface [polypeptide binding]; other site 398579002932 conserved gate region; other site 398579002933 putative PBP binding loops; other site 398579002934 ABC-ATPase subunit interface; other site 398579002935 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 398579002936 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 398579002937 dimer interface [polypeptide binding]; other site 398579002938 conserved gate region; other site 398579002939 putative PBP binding loops; other site 398579002940 ABC-ATPase subunit interface; other site 398579002941 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 398579002942 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398579002943 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 398579002944 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 398579002945 tetramerization interface [polypeptide binding]; other site 398579002946 NAD(P) binding site [chemical binding]; other site 398579002947 catalytic residues [active] 398579002948 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 398579002949 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 398579002950 inhibitor-cofactor binding pocket; inhibition site 398579002951 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579002952 catalytic residue [active] 398579002953 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 398579002954 Ligand Binding Site [chemical binding]; other site 398579002955 Cytochrome c553 [Energy production and conversion]; Region: COG2863 398579002956 cbb3-type cytochrome c oxidase subunit I; Provisional; Region: PRK14488 398579002957 Low-spin heme binding site [chemical binding]; other site 398579002958 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 398579002959 D-pathway; other site 398579002960 Putative water exit pathway; other site 398579002961 Binuclear center (active site) [active] 398579002962 K-pathway; other site 398579002963 Putative proton exit pathway; other site 398579002964 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 398579002965 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 398579002966 Cytochrome c; Region: Cytochrom_C; pfam00034 398579002967 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 398579002968 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398579002969 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398579002970 Cytochrome c; Region: Cytochrom_C; pfam00034 398579002971 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 398579002972 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 398579002973 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 398579002974 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 398579002975 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398579002976 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 398579002977 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 398579002978 DNA binding residues [nucleotide binding] 398579002979 DNA primase; Validated; Region: dnaG; PRK05667 398579002980 CHC2 zinc finger; Region: zf-CHC2; pfam01807 398579002981 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 398579002982 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 398579002983 active site 398579002984 metal binding site [ion binding]; metal-binding site 398579002985 interdomain interaction site; other site 398579002986 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 398579002987 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 398579002988 Yqey-like protein; Region: YqeY; pfam09424 398579002989 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 398579002990 UGMP family protein; Validated; Region: PRK09604 398579002991 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 398579002992 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 398579002993 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 398579002994 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 398579002995 homooctamer interface [polypeptide binding]; other site 398579002996 active site 398579002997 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 398579002998 catalytic center binding site [active] 398579002999 ATP binding site [chemical binding]; other site 398579003000 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 398579003001 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 398579003002 Methyltransferase domain; Region: Methyltransf_11; pfam08241 398579003003 L,D-transpeptidase; Provisional; Region: PRK10190 398579003004 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398579003005 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 398579003006 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 398579003007 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 398579003008 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 398579003009 active site 398579003010 NTP binding site [chemical binding]; other site 398579003011 metal binding triad [ion binding]; metal-binding site 398579003012 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 398579003013 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398579003014 Zn2+ binding site [ion binding]; other site 398579003015 Mg2+ binding site [ion binding]; other site 398579003016 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 398579003017 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 398579003018 Walker A motif; other site 398579003019 ATP binding site [chemical binding]; other site 398579003020 Walker B motif; other site 398579003021 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 398579003022 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 398579003023 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 398579003024 inhibitor-cofactor binding pocket; inhibition site 398579003025 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579003026 catalytic residue [active] 398579003027 aspartate carbamoyltransferase; Provisional; Region: PRK08192 398579003028 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 398579003029 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 398579003030 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 398579003031 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 398579003032 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 398579003033 N-terminal plug; other site 398579003034 ligand-binding site [chemical binding]; other site 398579003035 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 398579003036 Cytochrome c553 [Energy production and conversion]; Region: COG2863 398579003037 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398579003038 sulfite oxidase; Provisional; Region: PLN00177 398579003039 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 398579003040 Moco binding site; other site 398579003041 metal coordination site [ion binding]; other site 398579003042 dimerization interface [polypeptide binding]; other site 398579003043 Cytochrome c; Region: Cytochrom_C; cl11414 398579003044 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 398579003045 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 398579003046 Cl- selectivity filter; other site 398579003047 Cl- binding residues [ion binding]; other site 398579003048 pore gating glutamate residue; other site 398579003049 dimer interface [polypeptide binding]; other site 398579003050 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 398579003051 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 398579003052 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 398579003053 amphipathic channel; other site 398579003054 Asn-Pro-Ala signature motifs; other site 398579003055 dimer interface [polypeptide binding]; other site 398579003056 Alkaline phosphatase homologues; Region: alkPPc; smart00098 398579003057 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 398579003058 active site 398579003059 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 398579003060 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398579003061 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 398579003062 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 398579003063 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 398579003064 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 398579003065 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398579003066 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 398579003067 DNA binding site [nucleotide binding] 398579003068 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 398579003069 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 398579003070 putative peptidase; Provisional; Region: PRK11649 398579003071 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 398579003072 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 398579003073 Peptidase family M23; Region: Peptidase_M23; pfam01551 398579003074 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 398579003075 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 398579003076 active site 398579003077 HIGH motif; other site 398579003078 dimer interface [polypeptide binding]; other site 398579003079 KMSKS motif; other site 398579003080 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 398579003081 RNA binding surface [nucleotide binding]; other site 398579003082 SnoaL-like domain; Region: SnoaL_2; pfam12680 398579003083 hypothetical protein; Provisional; Region: PRK10578 398579003084 UPF0126 domain; Region: UPF0126; pfam03458 398579003085 UPF0126 domain; Region: UPF0126; pfam03458 398579003086 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 398579003087 Cobalamin biosynthesis protein CobD/CbiB [Coenzyme metabolism]; Region: CbiB; COG1270 398579003088 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 398579003089 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 398579003090 CHASE3 domain; Region: CHASE3; pfam05227 398579003091 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579003092 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579003093 metal binding site [ion binding]; metal-binding site 398579003094 active site 398579003095 I-site; other site 398579003096 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398579003097 Coenzyme A binding pocket [chemical binding]; other site 398579003098 Transcriptional regulators [Transcription]; Region: MarR; COG1846 398579003099 MarR family; Region: MarR; pfam01047 398579003100 MarR family; Region: MarR_2; cl17246 398579003101 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 398579003102 BCCT family transporter; Region: BCCT; cl00569 398579003103 choline dehydrogenase; Validated; Region: PRK02106 398579003104 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398579003105 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 398579003106 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 398579003107 tetrameric interface [polypeptide binding]; other site 398579003108 NAD binding site [chemical binding]; other site 398579003109 catalytic residues [active] 398579003110 transcriptional regulator BetI; Validated; Region: PRK00767 398579003111 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398579003112 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 398579003113 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 398579003114 active site 398579003115 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 398579003116 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 398579003117 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398579003118 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 398579003119 substrate binding site [chemical binding]; other site 398579003120 dimer interface [polypeptide binding]; other site 398579003121 ATP binding site [chemical binding]; other site 398579003122 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 398579003123 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 398579003124 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398579003125 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 398579003126 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 398579003127 active site 398579003128 dimer interface [polypeptide binding]; other site 398579003129 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 398579003130 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 398579003131 active site 398579003132 FMN binding site [chemical binding]; other site 398579003133 substrate binding site [chemical binding]; other site 398579003134 3Fe-4S cluster binding site [ion binding]; other site 398579003135 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 398579003136 domain interface; other site 398579003137 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 398579003138 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 398579003139 FeS/SAM binding site; other site 398579003140 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 398579003141 putative binding surface; other site 398579003142 active site 398579003143 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 398579003144 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579003145 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 398579003146 dimerization interface [polypeptide binding]; other site 398579003147 Integrase core domain; Region: rve; pfam00665 398579003148 Integrase core domain; Region: rve_3; pfam13683 398579003149 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 398579003150 cyclase homology domain; Region: CHD; cd07302 398579003151 nucleotidyl binding site; other site 398579003152 metal binding site [ion binding]; metal-binding site 398579003153 dimer interface [polypeptide binding]; other site 398579003154 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 398579003155 putative DNA-binding cleft [nucleotide binding]; other site 398579003156 putative DNA clevage site; other site 398579003157 molecular lever; other site 398579003158 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 398579003159 putative active site [active] 398579003160 Ap4A binding site [chemical binding]; other site 398579003161 nudix motif; other site 398579003162 putative metal binding site [ion binding]; other site 398579003163 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 398579003164 GAF domain; Region: GAF; pfam01590 398579003165 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 398579003166 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 398579003167 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 398579003168 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 398579003169 thymidylate synthase; Reviewed; Region: thyA; PRK01827 398579003170 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 398579003171 dimerization interface [polypeptide binding]; other site 398579003172 active site 398579003173 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 398579003174 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 398579003175 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579003176 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 398579003177 dimerization interface [polypeptide binding]; other site 398579003178 Uncharacterized conserved protein [Function unknown]; Region: COG2938 398579003179 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 398579003180 L-aspartate oxidase; Provisional; Region: PRK09077 398579003181 L-aspartate oxidase; Provisional; Region: PRK06175 398579003182 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 398579003183 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 398579003184 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398579003185 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 398579003186 DNA binding residues [nucleotide binding] 398579003187 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 398579003188 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 398579003189 anti-sigma E factor; Provisional; Region: rseB; PRK09455 398579003190 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 398579003191 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 398579003192 GTP-binding protein LepA; Provisional; Region: PRK05433 398579003193 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 398579003194 G1 box; other site 398579003195 putative GEF interaction site [polypeptide binding]; other site 398579003196 GTP/Mg2+ binding site [chemical binding]; other site 398579003197 Switch I region; other site 398579003198 G2 box; other site 398579003199 G3 box; other site 398579003200 Switch II region; other site 398579003201 G4 box; other site 398579003202 G5 box; other site 398579003203 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 398579003204 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 398579003205 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 398579003206 signal peptidase I; Provisional; Region: PRK10861 398579003207 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 398579003208 Catalytic site [active] 398579003209 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 398579003210 ribonuclease III; Reviewed; Region: rnc; PRK00102 398579003211 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 398579003212 dimerization interface [polypeptide binding]; other site 398579003213 active site 398579003214 metal binding site [ion binding]; metal-binding site 398579003215 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 398579003216 dsRNA binding site [nucleotide binding]; other site 398579003217 GTPase Era; Reviewed; Region: era; PRK00089 398579003218 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 398579003219 G1 box; other site 398579003220 GTP/Mg2+ binding site [chemical binding]; other site 398579003221 Switch I region; other site 398579003222 G2 box; other site 398579003223 Switch II region; other site 398579003224 G3 box; other site 398579003225 G4 box; other site 398579003226 G5 box; other site 398579003227 KH domain; Region: KH_2; pfam07650 398579003228 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 398579003229 Recombination protein O N terminal; Region: RecO_N; pfam11967 398579003230 Recombination protein O C terminal; Region: RecO_C; pfam02565 398579003231 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 398579003232 active site 398579003233 hydrophilic channel; other site 398579003234 dimerization interface [polypeptide binding]; other site 398579003235 catalytic residues [active] 398579003236 active site lid [active] 398579003237 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 398579003238 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398579003239 Dyp-type peroxidase family; Region: Dyp_perox_fam; TIGR01413 398579003240 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 398579003241 Protein of unknown function (DUF962); Region: DUF962; cl01879 398579003242 hypothetical protein; Provisional; Region: PRK11573 398579003243 Domain of unknown function DUF21; Region: DUF21; pfam01595 398579003244 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 398579003245 Transporter associated domain; Region: CorC_HlyC; smart01091 398579003246 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 398579003247 signal recognition particle protein; Provisional; Region: PRK10867 398579003248 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 398579003249 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 398579003250 P loop; other site 398579003251 GTP binding site [chemical binding]; other site 398579003252 Signal peptide binding domain; Region: SRP_SPB; pfam02978 398579003253 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 398579003254 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 398579003255 RimM N-terminal domain; Region: RimM; pfam01782 398579003256 PRC-barrel domain; Region: PRC; pfam05239 398579003257 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 398579003258 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 398579003259 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 398579003260 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 398579003261 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 398579003262 Chorismate mutase type II; Region: CM_2; cl00693 398579003263 prephenate dehydrogenase; Validated; Region: PRK08507 398579003264 hybrid cluster protein; Provisional; Region: PRK05290 398579003265 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 398579003266 ACS interaction site; other site 398579003267 CODH interaction site; other site 398579003268 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 398579003269 hybrid metal cluster; other site 398579003270 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 398579003271 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 398579003272 FAD binding pocket [chemical binding]; other site 398579003273 FAD binding motif [chemical binding]; other site 398579003274 phosphate binding motif [ion binding]; other site 398579003275 beta-alpha-beta structure motif; other site 398579003276 NAD binding pocket [chemical binding]; other site 398579003277 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 398579003278 catalytic loop [active] 398579003279 iron binding site [ion binding]; other site 398579003280 Predicted membrane protein [Function unknown]; Region: COG3671 398579003281 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 398579003282 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 398579003283 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 398579003284 Prephenate dehydratase; Region: PDT; pfam00800 398579003285 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 398579003286 putative L-Phe binding site [chemical binding]; other site 398579003287 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 398579003288 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroA; COG2876 398579003289 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 398579003290 30S subunit binding site; other site 398579003291 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 398579003292 Cytochrome C' Region: Cytochrom_C_2; pfam01322 398579003293 Trp repressor protein; Region: Trp_repressor; cl17266 398579003294 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 398579003295 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 398579003296 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 398579003297 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 398579003298 putative catalytic residues [active] 398579003299 putative nucleotide binding site [chemical binding]; other site 398579003300 putative aspartate binding site [chemical binding]; other site 398579003301 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 398579003302 dimer interface [polypeptide binding]; other site 398579003303 putative threonine allosteric regulatory site; other site 398579003304 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 398579003305 putative threonine allosteric regulatory site; other site 398579003306 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 398579003307 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 398579003308 homoserine kinase; Provisional; Region: PRK01212 398579003309 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 398579003310 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 398579003311 threonine synthase; Validated; Region: PRK09225 398579003312 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 398579003313 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398579003314 catalytic residue [active] 398579003315 endonuclease IV; Provisional; Region: PRK01060 398579003316 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 398579003317 DNA interaction; other site 398579003318 Metal-binding active site; metal-binding site 398579003319 AP (apurinic/apyrimidinic) site pocket; other site 398579003320 Hemerythrin family; Region: Hemerythrin-like; cl15774 398579003321 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 398579003322 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 398579003323 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 398579003324 active site 398579003325 dimer interface [polypeptide binding]; other site 398579003326 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 398579003327 dimer interface [polypeptide binding]; other site 398579003328 active site 398579003329 transaldolase-like protein; Provisional; Region: PTZ00411 398579003330 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 398579003331 active site 398579003332 dimer interface [polypeptide binding]; other site 398579003333 catalytic residue [active] 398579003334 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 398579003335 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398579003336 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398579003337 ligand binding site [chemical binding]; other site 398579003338 putative phosphoketolase; Provisional; Region: PRK05261 398579003339 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 398579003340 TPP-binding site; other site 398579003341 XFP C-terminal domain; Region: XFP_C; pfam09363 398579003342 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 398579003343 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 398579003344 hypothetical protein; Validated; Region: PRK02101 398579003345 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 398579003346 dimerization interface [polypeptide binding]; other site 398579003347 putative DNA binding site [nucleotide binding]; other site 398579003348 putative Zn2+ binding site [ion binding]; other site 398579003349 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 398579003350 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 398579003351 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 398579003352 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 398579003353 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 398579003354 active site 398579003355 Riboflavin kinase; Region: Flavokinase; smart00904 398579003356 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 398579003357 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398579003358 active site 398579003359 HIGH motif; other site 398579003360 nucleotide binding site [chemical binding]; other site 398579003361 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 398579003362 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 398579003363 active site 398579003364 KMSKS motif; other site 398579003365 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 398579003366 tRNA binding surface [nucleotide binding]; other site 398579003367 anticodon binding site; other site 398579003368 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 398579003369 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 398579003370 lipoprotein signal peptidase; Provisional; Region: PRK14787 398579003371 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 398579003372 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 398579003373 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 398579003374 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 398579003375 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 398579003376 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 398579003377 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 398579003378 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 398579003379 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 398579003380 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 398579003381 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 398579003382 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 398579003383 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 398579003384 Type II transport protein GspH; Region: GspH; pfam12019 398579003385 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 398579003386 Type II transport protein GspH; Region: GspH; pfam12019 398579003387 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 398579003388 Nitrogen regulatory protein P-II; Region: P-II; smart00938 398579003389 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398579003390 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398579003391 DNA binding site [nucleotide binding] 398579003392 domain linker motif; other site 398579003393 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 398579003394 putative dimerization interface [polypeptide binding]; other site 398579003395 putative ligand binding site [chemical binding]; other site 398579003396 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 398579003397 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 398579003398 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 398579003399 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 398579003400 SapC; Region: SapC; pfam07277 398579003401 Putative carbohydrate binding domain; Region: CHB_HEX; smart01081 398579003402 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 398579003403 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i) a...; Region: GH20_Sm-chitobiase-like; cd06569 398579003404 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 398579003405 active site 398579003406 C-terminal Early set domain associated with the catalytic domain of chitobiase (also called N-acetylglucosaminidase); Region: E_set_Chitobiase_C; cd02847 398579003407 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 398579003408 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 398579003409 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 398579003410 active site 398579003411 dimer interface [polypeptide binding]; other site 398579003412 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 398579003413 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 398579003414 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 398579003415 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 398579003416 Integrase core domain; Region: rve; pfam00665 398579003417 Integrase core domain; Region: rve_3; pfam13683 398579003418 oxidative damage protection protein; Provisional; Region: PRK05408 398579003419 adenine DNA glycosylase; Provisional; Region: PRK10880 398579003420 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 398579003421 minor groove reading motif; other site 398579003422 helix-hairpin-helix signature motif; other site 398579003423 substrate binding pocket [chemical binding]; other site 398579003424 active site 398579003425 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 398579003426 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 398579003427 DNA binding and oxoG recognition site [nucleotide binding] 398579003428 Methyltransferase domain; Region: Methyltransf_31; pfam13847 398579003429 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 398579003430 S-adenosylmethionine binding site [chemical binding]; other site 398579003431 hypothetical protein; Provisional; Region: PRK11702 398579003432 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 398579003433 glutaminase; Provisional; Region: PRK00971 398579003434 hypothetical protein; Provisional; Region: PRK10626 398579003435 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 398579003436 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579003437 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579003438 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 398579003439 putative effector binding pocket; other site 398579003440 dimerization interface [polypeptide binding]; other site 398579003441 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398579003442 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398579003443 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 398579003444 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_2; cd09320 398579003445 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 398579003446 gating phenylalanine in ion channel; other site 398579003447 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579003448 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579003449 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 398579003450 dimerization interface [polypeptide binding]; other site 398579003451 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 398579003452 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 398579003453 HemN family oxidoreductase; Provisional; Region: PRK05660 398579003454 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 398579003455 FeS/SAM binding site; other site 398579003456 HemN C-terminal domain; Region: HemN_C; pfam06969 398579003457 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 398579003458 active site 398579003459 dimerization interface [polypeptide binding]; other site 398579003460 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 398579003461 hypothetical protein; Validated; Region: PRK05090 398579003462 YGGT family; Region: YGGT; pfam02325 398579003463 YGGT family; Region: YGGT; pfam02325 398579003464 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 398579003465 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 398579003466 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 398579003467 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398579003468 catalytic residue [active] 398579003469 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 398579003470 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 398579003471 Walker A motif; other site 398579003472 ATP binding site [chemical binding]; other site 398579003473 Walker B motif; other site 398579003474 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 398579003475 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 398579003476 ATP binding site [chemical binding]; other site 398579003477 Walker B motif; other site 398579003478 ferrochelatase; Reviewed; Region: hemH; PRK00035 398579003479 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 398579003480 C-terminal domain interface [polypeptide binding]; other site 398579003481 active site 398579003482 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 398579003483 active site 398579003484 N-terminal domain interface [polypeptide binding]; other site 398579003485 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 398579003486 hypothetical protein; Validated; Region: PRK00228 398579003487 translation initiation factor Sui1; Validated; Region: PRK06824 398579003488 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 398579003489 putative rRNA binding site [nucleotide binding]; other site 398579003490 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 398579003491 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579003492 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579003493 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 398579003494 dimerization interface [polypeptide binding]; other site 398579003495 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 398579003496 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 398579003497 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 398579003498 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 398579003499 N-terminal plug; other site 398579003500 ligand-binding site [chemical binding]; other site 398579003501 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398579003502 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398579003503 ligand binding site [chemical binding]; other site 398579003504 mechanosensitive channel MscS; Provisional; Region: PRK10334 398579003505 Conserved TM helix; Region: TM_helix; pfam05552 398579003506 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398579003507 Predicted membrane protein [Function unknown]; Region: COG2860 398579003508 UPF0126 domain; Region: UPF0126; pfam03458 398579003509 UPF0126 domain; Region: UPF0126; pfam03458 398579003510 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 398579003511 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 398579003512 tetramer interface [polypeptide binding]; other site 398579003513 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579003514 catalytic residue [active] 398579003515 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 398579003516 dimer interface [polypeptide binding]; other site 398579003517 Alkaline phosphatase homologues; Region: alkPPc; smart00098 398579003518 active site 398579003519 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 398579003520 Alkaline phosphatase homologues; Region: alkPPc; smart00098 398579003521 active site 398579003522 dimer interface [polypeptide binding]; other site 398579003523 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 398579003524 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 398579003525 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398579003526 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398579003527 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398579003528 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398579003529 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579003530 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398579003531 Protein export membrane protein; Region: SecD_SecF; cl14618 398579003532 putative alcohol dehydrogenase; Provisional; Region: PRK09860 398579003533 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 398579003534 dimer interface [polypeptide binding]; other site 398579003535 active site 398579003536 metal binding site [ion binding]; metal-binding site 398579003537 Uncharacterized conserved protein [Function unknown]; Region: COG1432 398579003538 LabA_like proteins; Region: LabA; cd10911 398579003539 putative metal binding site [ion binding]; other site 398579003540 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398579003541 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398579003542 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579003543 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398579003544 Shewanella-like phosphatases, metallophosphatase domain; Region: MPP_Shelphs; cd07425 398579003545 active site 398579003546 metal binding site [ion binding]; metal-binding site 398579003547 Acyltransferase family; Region: Acyl_transf_3; pfam01757 398579003548 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 398579003549 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398579003550 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398579003551 ABC transporter; Region: ABC_tran_2; pfam12848 398579003552 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398579003553 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 398579003554 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 398579003555 dimer interface [polypeptide binding]; other site 398579003556 active site 398579003557 glycine-pyridoxal phosphate binding site [chemical binding]; other site 398579003558 folate binding site [chemical binding]; other site 398579003559 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 398579003560 ATP cone domain; Region: ATP-cone; pfam03477 398579003561 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 398579003562 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 398579003563 catalytic motif [active] 398579003564 Zn binding site [ion binding]; other site 398579003565 RibD C-terminal domain; Region: RibD_C; cl17279 398579003566 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 398579003567 Lumazine binding domain; Region: Lum_binding; pfam00677 398579003568 Lumazine binding domain; Region: Lum_binding; pfam00677 398579003569 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 398579003570 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 398579003571 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 398579003572 dimerization interface [polypeptide binding]; other site 398579003573 active site 398579003574 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 398579003575 homopentamer interface [polypeptide binding]; other site 398579003576 active site 398579003577 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 398579003578 putative RNA binding site [nucleotide binding]; other site 398579003579 thiamine monophosphate kinase; Provisional; Region: PRK05731 398579003580 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 398579003581 ATP binding site [chemical binding]; other site 398579003582 dimerization interface [polypeptide binding]; other site 398579003583 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 398579003584 tetramer interfaces [polypeptide binding]; other site 398579003585 binuclear metal-binding site [ion binding]; other site 398579003586 recombination and repair protein; Provisional; Region: PRK10869 398579003587 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 398579003588 Walker A/P-loop; other site 398579003589 ATP binding site [chemical binding]; other site 398579003590 Q-loop/lid; other site 398579003591 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 398579003592 ABC transporter signature motif; other site 398579003593 Walker B; other site 398579003594 D-loop; other site 398579003595 H-loop/switch region; other site 398579003596 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398579003597 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398579003598 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 398579003599 Divergent AAA domain; Region: AAA_4; pfam04326 398579003600 Pirin; Region: Pirin; pfam02678 398579003601 Pirin-related protein [General function prediction only]; Region: COG1741 398579003602 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 398579003603 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 398579003604 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 398579003605 putative dimer interface [polypeptide binding]; other site 398579003606 N-terminal domain interface [polypeptide binding]; other site 398579003607 putative substrate binding pocket (H-site) [chemical binding]; other site 398579003608 Predicted membrane protein [Function unknown]; Region: COG2259 398579003609 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579003610 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579003611 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 398579003612 dimerization interface [polypeptide binding]; other site 398579003613 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398579003614 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579003615 active site 398579003616 phosphorylation site [posttranslational modification] 398579003617 intermolecular recognition site; other site 398579003618 dimerization interface [polypeptide binding]; other site 398579003619 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 398579003620 binding surface 398579003621 TPR motif; other site 398579003622 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398579003623 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 398579003624 dimer interface [polypeptide binding]; other site 398579003625 phosphorylation site [posttranslational modification] 398579003626 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579003627 ATP binding site [chemical binding]; other site 398579003628 Mg2+ binding site [ion binding]; other site 398579003629 G-X-G motif; other site 398579003630 Response regulator receiver domain; Region: Response_reg; pfam00072 398579003631 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579003632 active site 398579003633 phosphorylation site [posttranslational modification] 398579003634 intermolecular recognition site; other site 398579003635 dimerization interface [polypeptide binding]; other site 398579003636 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579003637 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579003638 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 398579003639 putative effector binding pocket; other site 398579003640 dimerization interface [polypeptide binding]; other site 398579003641 Protein of unknown function (DUF416); Region: DUF416; pfam04222 398579003642 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 398579003643 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 398579003644 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 398579003645 dimerization interface [polypeptide binding]; other site 398579003646 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 398579003647 dimer interface [polypeptide binding]; other site 398579003648 phosphorylation site [posttranslational modification] 398579003649 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579003650 ATP binding site [chemical binding]; other site 398579003651 Mg2+ binding site [ion binding]; other site 398579003652 G-X-G motif; other site 398579003653 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579003654 active site 398579003655 phosphorylation site [posttranslational modification] 398579003656 intermolecular recognition site; other site 398579003657 dimerization interface [polypeptide binding]; other site 398579003658 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 398579003659 putative binding surface; other site 398579003660 active site 398579003661 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 398579003662 TRAM domain; Region: TRAM; pfam01938 398579003663 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 398579003664 S-adenosylmethionine binding site [chemical binding]; other site 398579003665 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 398579003666 HD domain; Region: HD_4; pfam13328 398579003667 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 398579003668 synthetase active site [active] 398579003669 NTP binding site [chemical binding]; other site 398579003670 metal binding site [ion binding]; metal-binding site 398579003671 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 398579003672 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 398579003673 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 398579003674 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 398579003675 homodimer interface [polypeptide binding]; other site 398579003676 metal binding site [ion binding]; metal-binding site 398579003677 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 398579003678 homodimer interface [polypeptide binding]; other site 398579003679 active site 398579003680 putative chemical substrate binding site [chemical binding]; other site 398579003681 metal binding site [ion binding]; metal-binding site 398579003682 CTP synthetase; Validated; Region: pyrG; PRK05380 398579003683 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 398579003684 Catalytic site [active] 398579003685 active site 398579003686 UTP binding site [chemical binding]; other site 398579003687 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 398579003688 active site 398579003689 putative oxyanion hole; other site 398579003690 catalytic triad [active] 398579003691 enolase; Provisional; Region: eno; PRK00077 398579003692 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 398579003693 dimer interface [polypeptide binding]; other site 398579003694 metal binding site [ion binding]; metal-binding site 398579003695 substrate binding pocket [chemical binding]; other site 398579003696 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 398579003697 Septum formation initiator; Region: DivIC; cl17659 398579003698 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 398579003699 substrate binding site; other site 398579003700 dimer interface; other site 398579003701 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 398579003702 homotrimer interaction site [polypeptide binding]; other site 398579003703 zinc binding site [ion binding]; other site 398579003704 CDP-binding sites; other site 398579003705 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 398579003706 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 398579003707 Permutation of conserved domain; other site 398579003708 active site 398579003709 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 398579003710 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 398579003711 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 398579003712 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 398579003713 S-adenosylmethionine binding site [chemical binding]; other site 398579003714 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 398579003715 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398579003716 Peptidase family M23; Region: Peptidase_M23; pfam01551 398579003717 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 398579003718 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 398579003719 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398579003720 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 398579003721 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 398579003722 DNA binding residues [nucleotide binding] 398579003723 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 398579003724 MutS domain I; Region: MutS_I; pfam01624 398579003725 MutS domain II; Region: MutS_II; pfam05188 398579003726 MutS domain III; Region: MutS_III; pfam05192 398579003727 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 398579003728 Walker A/P-loop; other site 398579003729 ATP binding site [chemical binding]; other site 398579003730 Q-loop/lid; other site 398579003731 ABC transporter signature motif; other site 398579003732 Walker B; other site 398579003733 D-loop; other site 398579003734 H-loop/switch region; other site 398579003735 recombinase A; Provisional; Region: recA; PRK09354 398579003736 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 398579003737 hexamer interface [polypeptide binding]; other site 398579003738 Walker A motif; other site 398579003739 ATP binding site [chemical binding]; other site 398579003740 Walker B motif; other site 398579003741 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 398579003742 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 398579003743 motif 1; other site 398579003744 active site 398579003745 motif 2; other site 398579003746 motif 3; other site 398579003747 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 398579003748 DHHA1 domain; Region: DHHA1; pfam02272 398579003749 carbon storage regulator; Provisional; Region: PRK01712 398579003750 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 398579003751 oxaloacetate decarboxylase; Provisional; Region: PRK14040 398579003752 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 398579003753 active site 398579003754 catalytic residues [active] 398579003755 metal binding site [ion binding]; metal-binding site 398579003756 homodimer binding site [polypeptide binding]; other site 398579003757 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 398579003758 carboxyltransferase (CT) interaction site; other site 398579003759 biotinylation site [posttranslational modification]; other site 398579003760 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 398579003761 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398579003762 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579003763 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 398579003764 dimerization interface [polypeptide binding]; other site 398579003765 substrate binding pocket [chemical binding]; other site 398579003766 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 398579003767 agmatine deiminase; Region: agmatine_aguA; TIGR03380 398579003768 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 398579003769 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 398579003770 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 398579003771 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 398579003772 putative active site; other site 398579003773 catalytic triad [active] 398579003774 putative dimer interface [polypeptide binding]; other site 398579003775 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398579003776 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 398579003777 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 398579003778 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 398579003779 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 398579003780 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 398579003781 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 398579003782 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 398579003783 glutamate--cysteine ligase; Provisional; Region: PRK02107 398579003784 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 398579003785 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398579003786 catalytic residue [active] 398579003787 AIR carboxylase; Region: AIRC; pfam00731 398579003788 RNA polymerase sigma factor; Provisional; Region: PRK12513 398579003789 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398579003790 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 398579003791 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 398579003792 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 398579003793 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 398579003794 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 398579003795 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 398579003796 protein binding site [polypeptide binding]; other site 398579003797 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 398579003798 Domain interface; other site 398579003799 Peptide binding site; other site 398579003800 Active site tetrad [active] 398579003801 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 398579003802 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398579003803 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579003804 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 398579003805 OsmC-like protein; Region: OsmC; pfam02566 398579003806 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 398579003807 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 398579003808 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 398579003809 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 398579003810 Protein of unknown function (DUF3649); Region: DUF3649; pfam12365 398579003811 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 398579003812 30S subunit binding site; other site 398579003813 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 398579003814 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 398579003815 TrkA-N domain; Region: TrkA_N; pfam02254 398579003816 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 398579003817 NnrS protein; Region: NnrS; pfam05940 398579003818 Cytochrome c552; Region: Cytochrom_C552; pfam02335 398579003819 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 398579003820 Helix-turn-helix domain; Region: HTH_18; pfam12833 398579003821 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398579003822 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 398579003823 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398579003824 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 398579003825 active site 398579003826 NTP binding site [chemical binding]; other site 398579003827 metal binding triad [ion binding]; metal-binding site 398579003828 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 398579003829 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398579003830 active site 398579003831 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 398579003832 GTPase RsgA; Reviewed; Region: PRK01889 398579003833 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 398579003834 GTPase/Zn-binding domain interface [polypeptide binding]; other site 398579003835 GTP/Mg2+ binding site [chemical binding]; other site 398579003836 G4 box; other site 398579003837 G5 box; other site 398579003838 G1 box; other site 398579003839 Switch I region; other site 398579003840 G2 box; other site 398579003841 G3 box; other site 398579003842 Switch II region; other site 398579003843 Domain of unknown function (DUF4394); Region: DUF4394; pfam14339 398579003844 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 398579003845 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_5; cd04962 398579003846 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398579003847 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 398579003848 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398579003849 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 398579003850 substrate binding pocket [chemical binding]; other site 398579003851 membrane-bound complex binding site; other site 398579003852 hinge residues; other site 398579003853 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 398579003854 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 398579003855 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 398579003856 FOG: CBS domain [General function prediction only]; Region: COG0517 398579003857 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 398579003858 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 398579003859 dimer interface [polypeptide binding]; other site 398579003860 FMN binding site [chemical binding]; other site 398579003861 NADPH bind site [chemical binding]; other site 398579003862 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 398579003863 substrate binding site [chemical binding]; other site 398579003864 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 398579003865 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398579003866 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398579003867 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 398579003868 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 398579003869 PhnA protein; Region: PhnA; pfam03831 398579003870 Cupin; Region: Cupin_6; pfam12852 398579003871 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398579003872 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398579003873 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398579003874 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 398579003875 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 398579003876 Protein of unknown function, DUF417; Region: DUF417; cl01162 398579003877 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 398579003878 DNA-binding site [nucleotide binding]; DNA binding site 398579003879 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 398579003880 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 398579003881 active site 398579003882 DNA binding site [nucleotide binding] 398579003883 Int/Topo IB signature motif; other site 398579003884 Protein of unknown function (DUF2787); Region: DUF2787; pfam10980 398579003885 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 398579003886 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 398579003887 MPN+ (JAMM) motif; other site 398579003888 Zinc-binding site [ion binding]; other site 398579003889 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 398579003890 Predicted transcriptional regulator [Transcription]; Region: COG2378 398579003891 WYL domain; Region: WYL; pfam13280 398579003892 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 398579003893 Plant protein of unknown function (DUF827); Region: DUF827; pfam05701 398579003894 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 398579003895 putative homodimer interface [polypeptide binding]; other site 398579003896 putative active site [active] 398579003897 catalytic site [active] 398579003898 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 398579003899 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 398579003900 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 398579003901 cofactor binding site; other site 398579003902 DNA binding site [nucleotide binding] 398579003903 substrate interaction site [chemical binding]; other site 398579003904 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 398579003905 ATP binding site [chemical binding]; other site 398579003906 putative Mg++ binding site [ion binding]; other site 398579003907 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 398579003908 nucleotide binding region [chemical binding]; other site 398579003909 ATP-binding site [chemical binding]; other site 398579003910 Pyoverdine/dityrosine biosynthesis protein [Secondary metabolites biosynthesis, transport, and catabolism]; Region: DIT1; COG3207 398579003911 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 398579003912 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 398579003913 ATP-binding site [chemical binding]; other site 398579003914 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 398579003915 Putative catalytic domain of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar4; cd09132 398579003916 PLD-like domain; Region: PLDc_2; pfam13091 398579003917 putative active site [active] 398579003918 putative catalytic site [active] 398579003919 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 398579003920 non-specific DNA binding site [nucleotide binding]; other site 398579003921 salt bridge; other site 398579003922 sequence-specific DNA binding site [nucleotide binding]; other site 398579003923 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 398579003924 integrase; Provisional; Region: PRK09692 398579003925 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 398579003926 active site 398579003927 Int/Topo IB signature motif; other site 398579003928 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 398579003929 SmpB-tmRNA interface; other site 398579003930 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 398579003931 putative coenzyme Q binding site [chemical binding]; other site 398579003932 hypothetical protein; Validated; Region: PRK01777 398579003933 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 398579003934 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 398579003935 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 398579003936 active site 398579003937 SAM binding site [chemical binding]; other site 398579003938 homodimer interface [polypeptide binding]; other site 398579003939 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cl06673 398579003940 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579003941 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579003942 metal binding site [ion binding]; metal-binding site 398579003943 active site 398579003944 I-site; other site 398579003945 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 398579003946 malate synthase A; Region: malate_syn_A; TIGR01344 398579003947 active site 398579003948 HDOD domain; Region: HDOD; pfam08668 398579003949 GAF domain; Region: GAF; cl17456 398579003950 SnoaL-like domain; Region: SnoaL_3; pfam13474 398579003951 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 398579003952 ParA-like protein; Provisional; Region: PHA02518 398579003953 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 398579003954 P-loop; other site 398579003955 Magnesium ion binding site [ion binding]; other site 398579003956 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 398579003957 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 398579003958 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398579003959 Coenzyme A binding pocket [chemical binding]; other site 398579003960 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 398579003961 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 398579003962 Coenzyme A binding pocket [chemical binding]; other site 398579003963 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 398579003964 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 398579003965 active site 398579003966 metal binding site [ion binding]; metal-binding site 398579003967 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 398579003968 Domain of unknown function DUF21; Region: DUF21; pfam01595 398579003969 FOG: CBS domain [General function prediction only]; Region: COG0517 398579003970 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 398579003971 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 398579003972 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 398579003973 FeS/SAM binding site; other site 398579003974 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 398579003975 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 398579003976 binding surface 398579003977 TPR motif; other site 398579003978 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 398579003979 binding surface 398579003980 TPR motif; other site 398579003981 cytoskeletal protein RodZ; Provisional; Region: PRK10856 398579003982 Helix-turn-helix domain; Region: HTH_25; pfam13413 398579003983 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 398579003984 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 398579003985 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 398579003986 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 398579003987 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 398579003988 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 398579003989 dimer interface [polypeptide binding]; other site 398579003990 motif 1; other site 398579003991 active site 398579003992 motif 2; other site 398579003993 motif 3; other site 398579003994 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 398579003995 anticodon binding site; other site 398579003996 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 398579003997 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 398579003998 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 398579003999 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 398579004000 Trp docking motif [polypeptide binding]; other site 398579004001 active site 398579004002 GTP-binding protein Der; Reviewed; Region: PRK00093 398579004003 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 398579004004 G1 box; other site 398579004005 GTP/Mg2+ binding site [chemical binding]; other site 398579004006 Switch I region; other site 398579004007 G2 box; other site 398579004008 Switch II region; other site 398579004009 G3 box; other site 398579004010 G4 box; other site 398579004011 G5 box; other site 398579004012 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 398579004013 G1 box; other site 398579004014 GTP/Mg2+ binding site [chemical binding]; other site 398579004015 Switch I region; other site 398579004016 G2 box; other site 398579004017 G3 box; other site 398579004018 Switch II region; other site 398579004019 G4 box; other site 398579004020 G5 box; other site 398579004021 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 398579004022 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 398579004023 generic binding surface II; other site 398579004024 generic binding surface I; other site 398579004025 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 398579004026 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 398579004027 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 398579004028 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 398579004029 active site 398579004030 GMP synthase; Reviewed; Region: guaA; PRK00074 398579004031 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 398579004032 AMP/PPi binding site [chemical binding]; other site 398579004033 candidate oxyanion hole; other site 398579004034 catalytic triad [active] 398579004035 potential glutamine specificity residues [chemical binding]; other site 398579004036 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 398579004037 ATP Binding subdomain [chemical binding]; other site 398579004038 Ligand Binding sites [chemical binding]; other site 398579004039 Dimerization subdomain; other site 398579004040 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 398579004041 nucleoside/Zn binding site; other site 398579004042 dimer interface [polypeptide binding]; other site 398579004043 catalytic motif [active] 398579004044 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 398579004045 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 398579004046 substrate binding pocket [chemical binding]; other site 398579004047 membrane-bound complex binding site; other site 398579004048 hinge residues; other site 398579004049 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 398579004050 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398579004051 catalytic residue [active] 398579004052 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 398579004053 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 398579004054 dimerization interface [polypeptide binding]; other site 398579004055 ATP binding site [chemical binding]; other site 398579004056 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 398579004057 dimerization interface [polypeptide binding]; other site 398579004058 ATP binding site [chemical binding]; other site 398579004059 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 398579004060 putative active site [active] 398579004061 catalytic triad [active] 398579004062 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 398579004063 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 398579004064 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 398579004065 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 398579004066 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 398579004067 Cache domain; Region: Cache_1; pfam02743 398579004068 HAMP domain; Region: HAMP; pfam00672 398579004069 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398579004070 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398579004071 dimer interface [polypeptide binding]; other site 398579004072 putative CheW interface [polypeptide binding]; other site 398579004073 Protein of unknown function (DUF465); Region: DUF465; pfam04325 398579004074 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398579004075 Protein export membrane protein; Region: SecD_SecF; cl14618 398579004076 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398579004077 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398579004078 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579004079 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398579004080 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398579004081 Protein of unknown function (DUF2947); Region: DUF2947; pfam11163 398579004082 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 398579004083 S-adenosylmethionine binding site [chemical binding]; other site 398579004084 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398579004085 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 398579004086 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 398579004087 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 398579004088 LPP20 lipoprotein; Region: LPP20; pfam02169 398579004089 FlgN protein; Region: FlgN; pfam05130 398579004090 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 398579004091 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 398579004092 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 398579004093 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 398579004094 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398579004095 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579004096 active site 398579004097 phosphorylation site [posttranslational modification] 398579004098 intermolecular recognition site; other site 398579004099 dimerization interface [polypeptide binding]; other site 398579004100 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 398579004101 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 398579004102 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 398579004103 S-adenosylmethionine binding site [chemical binding]; other site 398579004104 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12625 398579004105 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 398579004106 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 398579004107 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 398579004108 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 398579004109 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 398579004110 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 398579004111 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 398579004112 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 398579004113 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 398579004114 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 398579004115 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 398579004116 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 398579004117 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 398579004118 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 398579004119 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 398579004120 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 398579004121 Flagellar L-ring protein; Region: FlgH; pfam02107 398579004122 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 398579004123 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 398579004124 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 398579004125 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 398579004126 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 398579004127 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08871 398579004128 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 398579004129 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 398579004130 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 398579004131 flagellin; Reviewed; Region: PRK08869 398579004132 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 398579004133 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 398579004134 flagellin; Reviewed; Region: PRK08869 398579004135 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 398579004136 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 398579004137 FlaG protein; Region: FlaG; pfam03646 398579004138 flagellar capping protein; Reviewed; Region: fliD; PRK08032 398579004139 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 398579004140 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 398579004141 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 398579004142 flagellar protein FliS; Validated; Region: fliS; PRK05685 398579004143 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 398579004144 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 398579004145 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 398579004146 Walker A motif; other site 398579004147 ATP binding site [chemical binding]; other site 398579004148 Walker B motif; other site 398579004149 arginine finger; other site 398579004150 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398579004151 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398579004152 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 398579004153 putative active site [active] 398579004154 heme pocket [chemical binding]; other site 398579004155 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 398579004156 dimer interface [polypeptide binding]; other site 398579004157 phosphorylation site [posttranslational modification] 398579004158 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579004159 ATP binding site [chemical binding]; other site 398579004160 Mg2+ binding site [ion binding]; other site 398579004161 G-X-G motif; other site 398579004162 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398579004163 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579004164 active site 398579004165 phosphorylation site [posttranslational modification] 398579004166 intermolecular recognition site; other site 398579004167 dimerization interface [polypeptide binding]; other site 398579004168 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 398579004169 Walker A motif; other site 398579004170 ATP binding site [chemical binding]; other site 398579004171 Walker B motif; other site 398579004172 arginine finger; other site 398579004173 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398579004174 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 398579004175 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 398579004176 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 398579004177 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 398579004178 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 398579004179 MgtE intracellular N domain; Region: MgtE_N; smart00924 398579004180 FliG C-terminal domain; Region: FliG_C; pfam01706 398579004181 flagellar assembly protein H; Validated; Region: fliH; PRK05687 398579004182 Flagellar assembly protein FliH; Region: FliH; pfam02108 398579004183 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 398579004184 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 398579004185 Walker A motif/ATP binding site; other site 398579004186 Walker B motif; other site 398579004187 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 398579004188 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 398579004189 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 398579004190 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 398579004191 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 398579004192 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 398579004193 flagellar motor switch protein; Validated; Region: fliN; PRK08983 398579004194 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 398579004195 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 398579004196 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 398579004197 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 398579004198 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 398579004199 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 398579004200 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 398579004201 FHIPEP family; Region: FHIPEP; pfam00771 398579004202 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 398579004203 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 398579004204 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 398579004205 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 398579004206 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 398579004207 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 398579004208 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398579004209 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 398579004210 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 398579004211 DNA binding residues [nucleotide binding] 398579004212 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 398579004213 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579004214 active site 398579004215 phosphorylation site [posttranslational modification] 398579004216 intermolecular recognition site; other site 398579004217 dimerization interface [polypeptide binding]; other site 398579004218 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 398579004219 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 398579004220 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 398579004221 putative binding surface; other site 398579004222 active site 398579004223 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 398579004224 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579004225 ATP binding site [chemical binding]; other site 398579004226 Mg2+ binding site [ion binding]; other site 398579004227 G-X-G motif; other site 398579004228 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 398579004229 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 398579004230 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579004231 active site 398579004232 phosphorylation site [posttranslational modification] 398579004233 intermolecular recognition site; other site 398579004234 dimerization interface [polypeptide binding]; other site 398579004235 CheB methylesterase; Region: CheB_methylest; pfam01339 398579004236 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 398579004237 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 398579004238 P-loop; other site 398579004239 Magnesium ion binding site [ion binding]; other site 398579004240 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 398579004241 Magnesium ion binding site [ion binding]; other site 398579004242 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 398579004243 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 398579004244 putative CheA interaction surface; other site 398579004245 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 398579004246 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 398579004247 VacJ like lipoprotein; Region: VacJ; cl01073 398579004248 Response regulator receiver domain; Region: Response_reg; pfam00072 398579004249 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579004250 active site 398579004251 phosphorylation site [posttranslational modification] 398579004252 intermolecular recognition site; other site 398579004253 dimerization interface [polypeptide binding]; other site 398579004254 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 398579004255 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 398579004256 putative substrate translocation pore; other site 398579004257 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 398579004258 transcriptional activator RfaH; Region: RfaH; TIGR01955 398579004259 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 398579004260 heterodimer interface [polypeptide binding]; other site 398579004261 homodimer interface [polypeptide binding]; other site 398579004262 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 398579004263 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 398579004264 SLBB domain; Region: SLBB; pfam10531 398579004265 SLBB domain; Region: SLBB; pfam10531 398579004266 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 398579004267 hypothetical protein; Reviewed; Region: PRK12275 398579004268 four helix bundle protein; Region: TIGR02436 398579004269 Chain length determinant protein; Region: Wzz; pfam02706 398579004270 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 398579004271 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 398579004272 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 398579004273 NAD binding site [chemical binding]; other site 398579004274 substrate binding site [chemical binding]; other site 398579004275 homodimer interface [polypeptide binding]; other site 398579004276 active site 398579004277 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 398579004278 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 398579004279 substrate binding site; other site 398579004280 tetramer interface; other site 398579004281 WxcM-like, C-terminal; Region: FdtA; pfam05523 398579004282 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398579004283 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398579004284 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 398579004285 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 398579004286 inhibitor-cofactor binding pocket; inhibition site 398579004287 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579004288 catalytic residue [active] 398579004289 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 398579004290 active site 398579004291 hypothetical protein; Provisional; Region: PRK05849 398579004292 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 398579004293 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 398579004294 Peptidase C26; Region: Peptidase_C26; pfam07722 398579004295 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 398579004296 catalytic triad [active] 398579004297 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 398579004298 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 398579004299 active site 398579004300 metal-binding site 398579004301 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 398579004302 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 398579004303 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 398579004304 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398579004305 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 398579004306 putative ADP-binding pocket [chemical binding]; other site 398579004307 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 398579004308 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 398579004309 active site 398579004310 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 398579004311 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 398579004312 active site 398579004313 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 398579004314 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 398579004315 inhibitor-cofactor binding pocket; inhibition site 398579004316 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579004317 catalytic residue [active] 398579004318 Bacterial sugar transferase; Region: Bac_transf; pfam02397 398579004319 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 398579004320 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 398579004321 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 398579004322 NAD(P) binding site [chemical binding]; other site 398579004323 homodimer interface [polypeptide binding]; other site 398579004324 substrate binding site [chemical binding]; other site 398579004325 active site 398579004326 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 398579004327 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 398579004328 Beta-Casp domain; Region: Beta-Casp; smart01027 398579004329 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 398579004330 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 398579004331 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 398579004332 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 398579004333 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 398579004334 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398579004335 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 398579004336 putative NAD(P) binding site [chemical binding]; other site 398579004337 active site 398579004338 putative substrate binding site [chemical binding]; other site 398579004339 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 398579004340 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 398579004341 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 398579004342 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398579004343 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 398579004344 active site 398579004345 nucleotide binding site [chemical binding]; other site 398579004346 HIGH motif; other site 398579004347 KMSKS motif; other site 398579004348 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 398579004349 active site 398579004350 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 398579004351 putative trimer interface [polypeptide binding]; other site 398579004352 putative CoA binding site [chemical binding]; other site 398579004353 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 398579004354 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 398579004355 Bacterial sugar transferase; Region: Bac_transf; pfam02397 398579004356 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 398579004357 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 398579004358 active site 398579004359 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 398579004360 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 398579004361 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 398579004362 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 398579004363 Phage shock protein B; Region: PspB; cl05946 398579004364 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 398579004365 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 398579004366 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 398579004367 anti sigma factor interaction site; other site 398579004368 regulatory phosphorylation site [posttranslational modification]; other site 398579004369 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 398579004370 Response regulator receiver domain; Region: Response_reg; pfam00072 398579004371 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579004372 active site 398579004373 phosphorylation site [posttranslational modification] 398579004374 intermolecular recognition site; other site 398579004375 dimerization interface [polypeptide binding]; other site 398579004376 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 398579004377 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 398579004378 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 398579004379 dimerization interface [polypeptide binding]; other site 398579004380 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 398579004381 dimerization interface [polypeptide binding]; other site 398579004382 PAS domain S-box; Region: sensory_box; TIGR00229 398579004383 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 398579004384 putative active site [active] 398579004385 heme pocket [chemical binding]; other site 398579004386 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398579004387 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 398579004388 putative active site [active] 398579004389 heme pocket [chemical binding]; other site 398579004390 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 398579004391 dimer interface [polypeptide binding]; other site 398579004392 phosphorylation site [posttranslational modification] 398579004393 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579004394 ATP binding site [chemical binding]; other site 398579004395 Mg2+ binding site [ion binding]; other site 398579004396 G-X-G motif; other site 398579004397 Response regulator receiver domain; Region: Response_reg; pfam00072 398579004398 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579004399 active site 398579004400 phosphorylation site [posttranslational modification] 398579004401 intermolecular recognition site; other site 398579004402 dimerization interface [polypeptide binding]; other site 398579004403 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398579004404 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579004405 active site 398579004406 phosphorylation site [posttranslational modification] 398579004407 intermolecular recognition site; other site 398579004408 dimerization interface [polypeptide binding]; other site 398579004409 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 398579004410 Walker A motif; other site 398579004411 ATP binding site [chemical binding]; other site 398579004412 Walker B motif; other site 398579004413 arginine finger; other site 398579004414 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398579004415 putative hydrolase; Validated; Region: PRK09248 398579004416 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 398579004417 active site 398579004418 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 398579004419 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 398579004420 NADP binding site [chemical binding]; other site 398579004421 active site 398579004422 putative substrate binding site [chemical binding]; other site 398579004423 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 398579004424 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 398579004425 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 398579004426 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 398579004427 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 398579004428 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 398579004429 active site 398579004430 fructokinase; Reviewed; Region: PRK09557 398579004431 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 398579004432 nucleotide binding site [chemical binding]; other site 398579004433 Uncharacterized conserved protein [Function unknown]; Region: COG1434 398579004434 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 398579004435 putative active site [active] 398579004436 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 398579004437 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 398579004438 ferredoxin-type protein; Provisional; Region: PRK10194 398579004439 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 398579004440 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 398579004441 4Fe-4S binding domain; Region: Fer4; pfam00037 398579004442 UDP-glucose 4-epimerase; Region: PLN02240 398579004443 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 398579004444 NAD binding site [chemical binding]; other site 398579004445 homodimer interface [polypeptide binding]; other site 398579004446 active site 398579004447 substrate binding site [chemical binding]; other site 398579004448 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 398579004449 active site 398579004450 tetramer interface; other site 398579004451 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 398579004452 cofactor binding site; other site 398579004453 metal binding site [ion binding]; metal-binding site 398579004454 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 398579004455 aromatic arch; other site 398579004456 DCoH dimer interaction site [polypeptide binding]; other site 398579004457 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 398579004458 DCoH tetramer interaction site [polypeptide binding]; other site 398579004459 substrate binding site [chemical binding]; other site 398579004460 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 398579004461 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 398579004462 putative aromatic amino acid binding site; other site 398579004463 PAS domain; Region: PAS; smart00091 398579004464 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 398579004465 Walker A motif; other site 398579004466 ATP binding site [chemical binding]; other site 398579004467 Walker B motif; other site 398579004468 arginine finger; other site 398579004469 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 398579004470 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 398579004471 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 398579004472 maleylacetoacetate isomerase; Region: maiA; TIGR01262 398579004473 C-terminal domain interface [polypeptide binding]; other site 398579004474 GSH binding site (G-site) [chemical binding]; other site 398579004475 putative dimer interface [polypeptide binding]; other site 398579004476 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 398579004477 dimer interface [polypeptide binding]; other site 398579004478 N-terminal domain interface [polypeptide binding]; other site 398579004479 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 398579004480 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579004481 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579004482 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 398579004483 dimerization interface [polypeptide binding]; other site 398579004484 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 398579004485 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398579004486 putative substrate translocation pore; other site 398579004487 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 398579004488 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 398579004489 active site 398579004490 HIGH motif; other site 398579004491 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 398579004492 active site 398579004493 KMSKS motif; other site 398579004494 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 398579004495 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398579004496 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 398579004497 Walker A/P-loop; other site 398579004498 ATP binding site [chemical binding]; other site 398579004499 Q-loop/lid; other site 398579004500 ABC transporter signature motif; other site 398579004501 Walker B; other site 398579004502 D-loop; other site 398579004503 H-loop/switch region; other site 398579004504 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 398579004505 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 398579004506 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398579004507 AlkA N-terminal domain; Region: AlkA_N; pfam06029 398579004508 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 398579004509 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 398579004510 minor groove reading motif; other site 398579004511 helix-hairpin-helix signature motif; other site 398579004512 substrate binding pocket [chemical binding]; other site 398579004513 active site 398579004514 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 398579004515 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 398579004516 DNA binding site [nucleotide binding] 398579004517 active site 398579004518 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 398579004519 DEAD-like helicases superfamily; Region: DEXDc; smart00487 398579004520 ATP binding site [chemical binding]; other site 398579004521 Mg++ binding site [ion binding]; other site 398579004522 motif III; other site 398579004523 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 398579004524 nucleotide binding region [chemical binding]; other site 398579004525 ATP-binding site [chemical binding]; other site 398579004526 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 398579004527 active site 398579004528 catalytic residues [active] 398579004529 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 398579004530 PLD-like domain; Region: PLDc_2; pfam13091 398579004531 putative active site [active] 398579004532 catalytic site [active] 398579004533 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 398579004534 PLD-like domain; Region: PLDc_2; pfam13091 398579004535 putative active site [active] 398579004536 catalytic site [active] 398579004537 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 398579004538 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398579004539 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579004540 active site 398579004541 phosphorylation site [posttranslational modification] 398579004542 intermolecular recognition site; other site 398579004543 dimerization interface [polypeptide binding]; other site 398579004544 serine/threonine transporter SstT; Provisional; Region: PRK13628 398579004545 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398579004546 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 398579004547 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 398579004548 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 398579004549 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 398579004550 active site 398579004551 Protein of unknown function, DUF479; Region: DUF479; cl01203 398579004552 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 398579004553 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 398579004554 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 398579004555 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 398579004556 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 398579004557 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 398579004558 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 398579004559 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 398579004560 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 398579004561 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 398579004562 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 398579004563 Protein export membrane protein; Region: SecD_SecF; pfam02355 398579004564 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 398579004565 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 398579004566 active site residue [active] 398579004567 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 398579004568 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 398579004569 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 398579004570 YaeQ protein; Region: YaeQ; pfam07152 398579004571 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 398579004572 Carbon starvation protein CstA; Region: CstA; pfam02554 398579004573 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 398579004574 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 398579004575 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579004576 active site 398579004577 phosphorylation site [posttranslational modification] 398579004578 intermolecular recognition site; other site 398579004579 dimerization interface [polypeptide binding]; other site 398579004580 LytTr DNA-binding domain; Region: LytTR; pfam04397 398579004581 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 398579004582 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 398579004583 GAF domain; Region: GAF; pfam01590 398579004584 Histidine kinase; Region: His_kinase; pfam06580 398579004585 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579004586 ATP binding site [chemical binding]; other site 398579004587 Mg2+ binding site [ion binding]; other site 398579004588 G-X-G motif; other site 398579004589 Protein of unknown function (DUF2492); Region: DUF2492; pfam10678 398579004590 PilZ domain; Region: PilZ; pfam07238 398579004591 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 398579004592 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 398579004593 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 398579004594 active site 398579004595 dimerization interface [polypeptide binding]; other site 398579004596 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 398579004597 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 398579004598 serine O-acetyltransferase; Region: cysE; TIGR01172 398579004599 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 398579004600 trimer interface [polypeptide binding]; other site 398579004601 active site 398579004602 substrate binding site [chemical binding]; other site 398579004603 CoA binding site [chemical binding]; other site 398579004604 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 398579004605 Rrf2 family protein; Region: rrf2_super; TIGR00738 398579004606 cysteine desulfurase; Provisional; Region: PRK14012 398579004607 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 398579004608 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398579004609 catalytic residue [active] 398579004610 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 398579004611 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 398579004612 trimerization site [polypeptide binding]; other site 398579004613 active site 398579004614 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 398579004615 co-chaperone HscB; Provisional; Region: hscB; PRK05014 398579004616 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 398579004617 HSP70 interaction site [polypeptide binding]; other site 398579004618 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 398579004619 chaperone protein HscA; Provisional; Region: hscA; PRK05183 398579004620 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 398579004621 nucleotide binding site [chemical binding]; other site 398579004622 putative NEF/HSP70 interaction site [polypeptide binding]; other site 398579004623 SBD interface [polypeptide binding]; other site 398579004624 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 398579004625 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 398579004626 catalytic loop [active] 398579004627 iron binding site [ion binding]; other site 398579004628 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 398579004629 Integrase core domain; Region: rve; pfam00665 398579004630 Integrase core domain; Region: rve_3; pfam13683 398579004631 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 398579004632 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 398579004633 active site 398579004634 multimer interface [polypeptide binding]; other site 398579004635 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 398579004636 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 398579004637 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 398579004638 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 398579004639 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 398579004640 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 398579004641 FMN binding site [chemical binding]; other site 398579004642 active site 398579004643 catalytic residues [active] 398579004644 substrate binding site [chemical binding]; other site 398579004645 hypothetical protein; Provisional; Region: PRK05409 398579004646 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 398579004647 hypothetical protein; Provisional; Region: PRK10527 398579004648 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398579004649 active site 398579004650 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14949 398579004651 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 398579004652 Walker A motif; other site 398579004653 ATP binding site [chemical binding]; other site 398579004654 Walker B motif; other site 398579004655 DNA polymerase III subunit delta'; Validated; Region: PRK08485 398579004656 arginine finger; other site 398579004657 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 398579004658 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 398579004659 hypothetical protein; Validated; Region: PRK00153 398579004660 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 398579004661 trimer interface [polypeptide binding]; other site 398579004662 active site 398579004663 substrate binding site [chemical binding]; other site 398579004664 CoA binding site [chemical binding]; other site 398579004665 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 398579004666 Sel1 repeat; Region: Sel1; cl02723 398579004667 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 398579004668 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 398579004669 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 398579004670 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 398579004671 cyclically-permuted mutarotase family protein; Region: mutarot_permut; TIGR03548 398579004672 Galactose oxidase, central domain; Region: Kelch_3; cl02701 398579004673 Kelch motif; Region: Kelch_5; pfam13854 398579004674 Vibrio cholerae sialidase, lectin insertion; Region: Sial-lect-inser; pfam09264 398579004675 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 398579004676 Vibrio cholerae sialidase, lectin insertion; Region: Sial-lect-inser; pfam09264 398579004677 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 398579004678 catalytic site [active] 398579004679 BNR repeat-like domain; Region: BNR_2; pfam13088 398579004680 Asp-box motif; other site 398579004681 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 398579004682 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398579004683 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398579004684 nucleophilic elbow; other site 398579004685 catalytic triad; other site 398579004686 transcriptional regulator NanR; Provisional; Region: PRK03837 398579004687 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398579004688 DNA-binding site [nucleotide binding]; DNA binding site 398579004689 FCD domain; Region: FCD; pfam07729 398579004690 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u3; cd11495 398579004691 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 398579004692 Na binding site [ion binding]; other site 398579004693 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 398579004694 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 398579004695 putative active site cavity [active] 398579004696 N-acetylmannosamine kinase; Provisional; Region: PRK05082 398579004697 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 398579004698 nucleotide binding site [chemical binding]; other site 398579004699 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 398579004700 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 398579004701 active site 398579004702 trimer interface [polypeptide binding]; other site 398579004703 allosteric site; other site 398579004704 active site lid [active] 398579004705 hexamer (dimer of trimers) interface [polypeptide binding]; other site 398579004706 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 398579004707 Class I aldolases; Region: Aldolase_Class_I; cl17187 398579004708 catalytic residue [active] 398579004709 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 398579004710 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 398579004711 active site 398579004712 dimer interface [polypeptide binding]; other site 398579004713 recombination protein RecR; Reviewed; Region: recR; PRK00076 398579004714 RecR protein; Region: RecR; pfam02132 398579004715 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 398579004716 putative active site [active] 398579004717 putative metal-binding site [ion binding]; other site 398579004718 tetramer interface [polypeptide binding]; other site 398579004719 heat shock protein 90; Provisional; Region: PRK05218 398579004720 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579004721 ATP binding site [chemical binding]; other site 398579004722 Mg2+ binding site [ion binding]; other site 398579004723 G-X-G motif; other site 398579004724 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 398579004725 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 398579004726 adenylate kinase; Reviewed; Region: adk; PRK00279 398579004727 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 398579004728 AMP-binding site [chemical binding]; other site 398579004729 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 398579004730 ferrochelatase; Reviewed; Region: hemH; PRK00035 398579004731 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 398579004732 C-terminal domain interface [polypeptide binding]; other site 398579004733 active site 398579004734 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 398579004735 active site 398579004736 N-terminal domain interface [polypeptide binding]; other site 398579004737 inosine/guanosine kinase; Provisional; Region: PRK15074 398579004738 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398579004739 maltose O-acetyltransferase; Provisional; Region: PRK10092 398579004740 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 398579004741 active site 398579004742 substrate binding site [chemical binding]; other site 398579004743 trimer interface [polypeptide binding]; other site 398579004744 CoA binding site [chemical binding]; other site 398579004745 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398579004746 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 398579004747 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 398579004748 succinylarginine dihydrolase; Provisional; Region: PRK13281 398579004749 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 398579004750 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 398579004751 active site 398579004752 interdomain interaction site; other site 398579004753 putative metal-binding site [ion binding]; other site 398579004754 nucleotide binding site [chemical binding]; other site 398579004755 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 398579004756 domain I; other site 398579004757 DNA binding groove [nucleotide binding] 398579004758 phosphate binding site [ion binding]; other site 398579004759 domain II; other site 398579004760 domain III; other site 398579004761 nucleotide binding site [chemical binding]; other site 398579004762 catalytic site [active] 398579004763 domain IV; other site 398579004764 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 398579004765 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 398579004766 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 398579004767 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 398579004768 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 398579004769 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579004770 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 398579004771 substrate binding site [chemical binding]; other site 398579004772 dimerization interface [polypeptide binding]; other site 398579004773 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 398579004774 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 398579004775 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 398579004776 beta-hexosaminidase; Provisional; Region: PRK05337 398579004777 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 398579004778 hypothetical protein; Provisional; Region: PRK04940 398579004779 acylphosphatase; Provisional; Region: PRK14429 398579004780 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 398579004781 transcription-repair coupling factor; Provisional; Region: PRK10689 398579004782 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 398579004783 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 398579004784 ATP binding site [chemical binding]; other site 398579004785 putative Mg++ binding site [ion binding]; other site 398579004786 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 398579004787 nucleotide binding region [chemical binding]; other site 398579004788 ATP-binding site [chemical binding]; other site 398579004789 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 398579004790 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 398579004791 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 398579004792 FtsX-like permease family; Region: FtsX; pfam02687 398579004793 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 398579004794 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398579004795 Walker A/P-loop; other site 398579004796 ATP binding site [chemical binding]; other site 398579004797 Q-loop/lid; other site 398579004798 ABC transporter signature motif; other site 398579004799 Walker B; other site 398579004800 D-loop; other site 398579004801 H-loop/switch region; other site 398579004802 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 398579004803 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 398579004804 FtsX-like permease family; Region: FtsX; pfam02687 398579004805 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 398579004806 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 398579004807 putative active site [active] 398579004808 Zn binding site [ion binding]; other site 398579004809 ferredoxin--nitrite reductase; Region: PLN02431 398579004810 multidrug resistance protein MdtN; Provisional; Region: PRK10476 398579004811 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 398579004812 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579004813 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 398579004814 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398579004815 MarR family; Region: MarR_2; pfam12802 398579004816 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_4; cd07268 398579004817 putative metal binding site [ion binding]; other site 398579004818 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 398579004819 Ion transport protein; Region: Ion_trans; pfam00520 398579004820 Ion channel; Region: Ion_trans_2; pfam07885 398579004821 Double zinc ribbon; Region: DZR; pfam12773 398579004822 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 398579004823 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 398579004824 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 398579004825 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398579004826 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398579004827 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398579004828 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579004829 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398579004830 Protein export membrane protein; Region: SecD_SecF; cl14618 398579004831 Protein export membrane protein; Region: SecD_SecF; cl14618 398579004832 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 398579004833 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 398579004834 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 398579004835 Uncharacterized conserved protein [Function unknown]; Region: COG3791 398579004836 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 398579004837 Ligand Binding Site [chemical binding]; other site 398579004838 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 398579004839 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398579004840 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 398579004841 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 398579004842 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 398579004843 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 398579004844 dimer interface [polypeptide binding]; other site 398579004845 active site residues [active] 398579004846 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 398579004847 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 398579004848 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 398579004849 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 398579004850 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 398579004851 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 398579004852 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 398579004853 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 398579004854 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 398579004855 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 398579004856 catalytic loop [active] 398579004857 iron binding site [ion binding]; other site 398579004858 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 398579004859 FAD binding pocket [chemical binding]; other site 398579004860 FAD binding motif [chemical binding]; other site 398579004861 phosphate binding motif [ion binding]; other site 398579004862 beta-alpha-beta structure motif; other site 398579004863 NAD binding pocket [chemical binding]; other site 398579004864 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 398579004865 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 398579004866 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 398579004867 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 398579004868 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398579004869 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 398579004870 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 398579004871 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 398579004872 substrate binding site [chemical binding]; other site 398579004873 active site 398579004874 catalytic residues [active] 398579004875 heterodimer interface [polypeptide binding]; other site 398579004876 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 398579004877 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 398579004878 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579004879 catalytic residue [active] 398579004880 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 398579004881 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 398579004882 active site 398579004883 ribulose/triose binding site [chemical binding]; other site 398579004884 phosphate binding site [ion binding]; other site 398579004885 substrate (anthranilate) binding pocket [chemical binding]; other site 398579004886 product (indole) binding pocket [chemical binding]; other site 398579004887 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 398579004888 active site 398579004889 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 398579004890 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 398579004891 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 398579004892 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 398579004893 Glutamine amidotransferase class-I; Region: GATase; pfam00117 398579004894 glutamine binding [chemical binding]; other site 398579004895 catalytic triad [active] 398579004896 anthranilate synthase component I; Provisional; Region: PRK13564 398579004897 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 398579004898 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 398579004899 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 398579004900 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 398579004901 Nitrogen regulatory protein P-II; Region: P-II; smart00938 398579004902 FOG: CBS domain [General function prediction only]; Region: COG0517 398579004903 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_17; cd04630 398579004904 RecX family; Region: RecX; pfam02631 398579004905 RecX family; Region: RecX; pfam02631 398579004906 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 398579004907 substrate binding site [chemical binding]; other site 398579004908 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398579004909 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 398579004910 conserved cys residue [active] 398579004911 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 398579004912 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 398579004913 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 398579004914 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 398579004915 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 398579004916 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398579004917 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 398579004918 putative substrate binding pocket [chemical binding]; other site 398579004919 trimer interface [polypeptide binding]; other site 398579004920 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 398579004921 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 398579004922 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 398579004923 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 398579004924 dimer interface [polypeptide binding]; other site 398579004925 active site 398579004926 SnoaL-like domain; Region: SnoaL_2; pfam12680 398579004927 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579004928 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579004929 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 398579004930 dimerization interface [polypeptide binding]; other site 398579004931 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 398579004932 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 398579004933 dimer interface [polypeptide binding]; other site 398579004934 active site 398579004935 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398579004936 substrate binding site [chemical binding]; other site 398579004937 catalytic residue [active] 398579004938 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 398579004939 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 398579004940 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398579004941 Coenzyme A binding pocket [chemical binding]; other site 398579004942 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 398579004943 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 398579004944 ligand binding site [chemical binding]; other site 398579004945 NAD binding site [chemical binding]; other site 398579004946 catalytic site [active] 398579004947 homodimer interface [polypeptide binding]; other site 398579004948 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 398579004949 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 398579004950 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 398579004951 Integrase core domain; Region: rve; pfam00665 398579004952 Integrase core domain; Region: rve_3; pfam13683 398579004953 FimV N-terminal domain; Region: FimV_core; TIGR03505 398579004954 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 398579004955 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 398579004956 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 398579004957 dimerization interface 3.5A [polypeptide binding]; other site 398579004958 active site 398579004959 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 398579004960 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398579004961 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398579004962 cell division protein DedD; Provisional; Region: PRK11633 398579004963 Sporulation related domain; Region: SPOR; pfam05036 398579004964 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 398579004965 Colicin V production protein; Region: Colicin_V; cl00567 398579004966 amidophosphoribosyltransferase; Provisional; Region: PRK09246 398579004967 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 398579004968 active site 398579004969 tetramer interface [polypeptide binding]; other site 398579004970 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398579004971 active site 398579004972 Integrase core domain; Region: rve; pfam00665 398579004973 Integrase core domain; Region: rve_3; pfam13683 398579004974 DNA topoisomerase III; Provisional; Region: PRK07726 398579004975 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 398579004976 active site 398579004977 putative interdomain interaction site [polypeptide binding]; other site 398579004978 putative metal-binding site [ion binding]; other site 398579004979 putative nucleotide binding site [chemical binding]; other site 398579004980 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 398579004981 domain I; other site 398579004982 DNA binding groove [nucleotide binding] 398579004983 phosphate binding site [ion binding]; other site 398579004984 domain II; other site 398579004985 domain III; other site 398579004986 nucleotide binding site [chemical binding]; other site 398579004987 catalytic site [active] 398579004988 domain IV; other site 398579004989 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 398579004990 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398579004991 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 398579004992 Cache domain; Region: Cache_1; pfam02743 398579004993 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 398579004994 dimerization interface [polypeptide binding]; other site 398579004995 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398579004996 dimer interface [polypeptide binding]; other site 398579004997 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 398579004998 putative CheW interface [polypeptide binding]; other site 398579004999 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579005000 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579005001 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 398579005002 dimerization interface [polypeptide binding]; other site 398579005003 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 398579005004 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 398579005005 dimer interface [polypeptide binding]; other site 398579005006 active site 398579005007 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 398579005008 galactokinase; Provisional; Region: PRK05101 398579005009 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 398579005010 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 398579005011 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 398579005012 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 398579005013 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 398579005014 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 398579005015 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398579005016 dimer interface [polypeptide binding]; other site 398579005017 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 398579005018 putative CheW interface [polypeptide binding]; other site 398579005019 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 398579005020 putative catalytic site [active] 398579005021 putative phosphate binding site [ion binding]; other site 398579005022 active site 398579005023 metal binding site A [ion binding]; metal-binding site 398579005024 DNA binding site [nucleotide binding] 398579005025 putative AP binding site [nucleotide binding]; other site 398579005026 putative metal binding site B [ion binding]; other site 398579005027 YciI-like protein; Reviewed; Region: PRK11370 398579005028 intracellular septation protein A; Reviewed; Region: PRK00259 398579005029 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 398579005030 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 398579005031 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 398579005032 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 398579005033 active site 398579005034 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 398579005035 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 398579005036 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 398579005037 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 398579005038 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 398579005039 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 398579005040 RNA binding surface [nucleotide binding]; other site 398579005041 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 398579005042 probable active site [active] 398579005043 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 398579005044 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398579005045 NAD(P) binding site [chemical binding]; other site 398579005046 active site 398579005047 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 398579005048 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 398579005049 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 398579005050 putative inner membrane peptidase; Provisional; Region: PRK11778 398579005051 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 398579005052 tandem repeat interface [polypeptide binding]; other site 398579005053 oligomer interface [polypeptide binding]; other site 398579005054 active site residues [active] 398579005055 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 398579005056 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398579005057 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398579005058 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 398579005059 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 398579005060 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 398579005061 inhibitor site; inhibition site 398579005062 active site 398579005063 dimer interface [polypeptide binding]; other site 398579005064 catalytic residue [active] 398579005065 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 398579005066 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398579005067 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398579005068 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 398579005069 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 398579005070 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 398579005071 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 398579005072 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 398579005073 active site 398579005074 catalytic triad [active] 398579005075 oxyanion hole [active] 398579005076 switch loop; other site 398579005077 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 398579005078 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398579005079 Walker A/P-loop; other site 398579005080 ATP binding site [chemical binding]; other site 398579005081 Q-loop/lid; other site 398579005082 ABC transporter signature motif; other site 398579005083 Walker B; other site 398579005084 D-loop; other site 398579005085 H-loop/switch region; other site 398579005086 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 398579005087 FtsX-like permease family; Region: FtsX; pfam02687 398579005088 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 398579005089 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 398579005090 putative NAD(P) binding site [chemical binding]; other site 398579005091 putative active site [active] 398579005092 D-erythro-7,8-dihydroneopterin triphosphate 2'-epimerase; Provisional; Region: folX; PRK11245 398579005093 active site 398579005094 Domain of unknown function DUF20; Region: UPF0118; pfam01594 398579005095 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 398579005096 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 398579005097 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 398579005098 S-adenosylmethionine binding site [chemical binding]; other site 398579005099 phosphate acetyltransferase; Reviewed; Region: PRK05632 398579005100 DRTGG domain; Region: DRTGG; pfam07085 398579005101 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 398579005102 propionate/acetate kinase; Provisional; Region: PRK12379 398579005103 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 398579005104 Protein of unknown function, DUF412; Region: DUF412; pfam04217 398579005105 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 398579005106 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 398579005107 FeS/SAM binding site; other site 398579005108 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 398579005109 Pyruvate formate lyase 1; Region: PFL1; cd01678 398579005110 coenzyme A binding site [chemical binding]; other site 398579005111 active site 398579005112 catalytic residues [active] 398579005113 glycine loop; other site 398579005114 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 398579005115 formate transporter FocA; Region: formate_focA; TIGR04060 398579005116 FOG: CBS domain [General function prediction only]; Region: COG0517 398579005117 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 398579005118 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 398579005119 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579005120 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 398579005121 putative dimerization interface [polypeptide binding]; other site 398579005122 Protein of unknown function (DUF997); Region: DUF997; cl01614 398579005123 sodium/panthothenate symporter; Provisional; Region: panF; PRK09442 398579005124 Na binding site [ion binding]; other site 398579005125 hypothetical protein; Provisional; Region: PRK11588 398579005126 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 398579005127 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 398579005128 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 398579005129 gating phenylalanine in ion channel; other site 398579005130 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 398579005131 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 398579005132 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398579005133 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 398579005134 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 398579005135 dimer interface [polypeptide binding]; other site 398579005136 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579005137 catalytic residue [active] 398579005138 RDD family; Region: RDD; cl00746 398579005139 RDD family; Region: RDD; pfam06271 398579005140 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398579005141 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579005142 active site 398579005143 phosphorylation site [posttranslational modification] 398579005144 intermolecular recognition site; other site 398579005145 dimerization interface [polypeptide binding]; other site 398579005146 Response regulator receiver domain; Region: Response_reg; pfam00072 398579005147 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579005148 active site 398579005149 phosphorylation site [posttranslational modification] 398579005150 intermolecular recognition site; other site 398579005151 dimerization interface [polypeptide binding]; other site 398579005152 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579005153 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579005154 metal binding site [ion binding]; metal-binding site 398579005155 active site 398579005156 I-site; other site 398579005157 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 398579005158 putative ligand binding site [chemical binding]; other site 398579005159 putative sulfate transport protein CysZ; Validated; Region: PRK04949 398579005160 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 398579005161 AAA domain; Region: AAA_23; pfam13476 398579005162 Walker A/P-loop; other site 398579005163 ATP binding site [chemical binding]; other site 398579005164 Q-loop/lid; other site 398579005165 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 398579005166 ABC transporter signature motif; other site 398579005167 Walker B; other site 398579005168 D-loop; other site 398579005169 H-loop/switch region; other site 398579005170 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 398579005171 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 398579005172 FtsZ protein binding site [polypeptide binding]; other site 398579005173 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 398579005174 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 398579005175 nucleotide binding pocket [chemical binding]; other site 398579005176 K-X-D-G motif; other site 398579005177 catalytic site [active] 398579005178 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 398579005179 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 398579005180 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 398579005181 Dimer interface [polypeptide binding]; other site 398579005182 BRCT sequence motif; other site 398579005183 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 398579005184 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 398579005185 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398579005186 Zn2+ binding site [ion binding]; other site 398579005187 Mg2+ binding site [ion binding]; other site 398579005188 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 398579005189 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398579005190 putative NAD(P) binding site [chemical binding]; other site 398579005191 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 398579005192 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 398579005193 catalytic residues [active] 398579005194 hinge region; other site 398579005195 alpha helical domain; other site 398579005196 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 398579005197 active site 398579005198 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 398579005199 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 398579005200 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 398579005201 Na binding site [ion binding]; other site 398579005202 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 398579005203 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 398579005204 ligand binding site [chemical binding]; other site 398579005205 flexible hinge region; other site 398579005206 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 398579005207 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 398579005208 metal binding triad; other site 398579005209 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 398579005210 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 398579005211 active site 398579005212 catalytic site [active] 398579005213 substrate binding site [chemical binding]; other site 398579005214 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 398579005215 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 398579005216 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 398579005217 dimer interface [polypeptide binding]; other site 398579005218 active site 398579005219 CoA binding pocket [chemical binding]; other site 398579005220 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398579005221 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398579005222 DNA-binding site [nucleotide binding]; DNA binding site 398579005223 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 398579005224 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 398579005225 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 398579005226 dimer interface [polypeptide binding]; other site 398579005227 NADP binding site [chemical binding]; other site 398579005228 catalytic residues [active] 398579005229 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 398579005230 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 398579005231 Class I aldolases; Region: Aldolase_Class_I; cl17187 398579005232 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 398579005233 Proline racemase; Region: Pro_racemase; pfam05544 398579005234 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398579005235 hydroxyglutarate oxidase; Provisional; Region: PRK11728 398579005236 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 398579005237 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398579005238 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 398579005239 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398579005240 Amino acid permease; Region: AA_permease_2; pfam13520 398579005241 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 398579005242 proline aminopeptidase P II; Provisional; Region: PRK10879 398579005243 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 398579005244 active site 398579005245 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 398579005246 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 398579005247 active site 398579005248 motif I; other site 398579005249 motif II; other site 398579005250 DDE superfamily endonuclease; Region: DDE_3; pfam13358 398579005251 Winged helix-turn helix; Region: HTH_33; pfam13592 398579005252 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 398579005253 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 398579005254 Nucleoside recognition; Region: Gate; pfam07670 398579005255 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 398579005256 purine nucleoside phosphorylase; Provisional; Region: PRK08202 398579005257 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 398579005258 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579005259 The C-terminal substrate binding domain of LysR-type transcriptional regulator XapR involved in xanthosine catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_XapR; cd08449 398579005260 putative dimerization interface [polypeptide binding]; other site 398579005261 putative substrate binding pocket [chemical binding]; other site 398579005262 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 398579005263 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 398579005264 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 398579005265 Cl binding site [ion binding]; other site 398579005266 oligomer interface [polypeptide binding]; other site 398579005267 Protein of unknown function (DUF3135); Region: DUF3135; pfam11333 398579005268 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 398579005269 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 398579005270 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398579005271 Zn2+ binding site [ion binding]; other site 398579005272 Mg2+ binding site [ion binding]; other site 398579005273 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 398579005274 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398579005275 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 398579005276 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579005277 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 398579005278 putative substrate binding pocket [chemical binding]; other site 398579005279 putative dimerization interface [polypeptide binding]; other site 398579005280 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 398579005281 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398579005282 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398579005283 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398579005284 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579005285 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 398579005286 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 398579005287 FeS/SAM binding site; other site 398579005288 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 398579005289 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398579005290 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579005291 active site 398579005292 phosphorylation site [posttranslational modification] 398579005293 intermolecular recognition site; other site 398579005294 dimerization interface [polypeptide binding]; other site 398579005295 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 398579005296 DNA binding residues [nucleotide binding] 398579005297 dimerization interface [polypeptide binding]; other site 398579005298 GAF domain; Region: GAF_3; pfam13492 398579005299 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 398579005300 Histidine kinase; Region: HisKA_3; pfam07730 398579005301 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 398579005302 ATP binding site [chemical binding]; other site 398579005303 Mg2+ binding site [ion binding]; other site 398579005304 G-X-G motif; other site 398579005305 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 398579005306 Sulfatase; Region: Sulfatase; pfam00884 398579005307 MoxR-like ATPases [General function prediction only]; Region: COG0714 398579005308 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 398579005309 Walker A motif; other site 398579005310 ATP binding site [chemical binding]; other site 398579005311 Walker B motif; other site 398579005312 arginine finger; other site 398579005313 Protein of unknown function DUF58; Region: DUF58; pfam01882 398579005314 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 398579005315 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 398579005316 metal ion-dependent adhesion site (MIDAS); other site 398579005317 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 398579005318 metal ion-dependent adhesion site (MIDAS); other site 398579005319 Oxygen tolerance; Region: BatD; pfam13584 398579005320 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 398579005321 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 398579005322 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 398579005323 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 398579005324 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579005325 ATP binding site [chemical binding]; other site 398579005326 Mg2+ binding site [ion binding]; other site 398579005327 G-X-G motif; other site 398579005328 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 398579005329 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579005330 active site 398579005331 phosphorylation site [posttranslational modification] 398579005332 intermolecular recognition site; other site 398579005333 dimerization interface [polypeptide binding]; other site 398579005334 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 398579005335 DNA binding site [nucleotide binding] 398579005336 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 398579005337 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 398579005338 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398579005339 Walker A/P-loop; other site 398579005340 ATP binding site [chemical binding]; other site 398579005341 ABC transporter signature motif; other site 398579005342 Walker B; other site 398579005343 D-loop; other site 398579005344 H-loop/switch region; other site 398579005345 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 398579005346 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 398579005347 Phasin protein; Region: Phasin_2; cl11491 398579005348 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 398579005349 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 398579005350 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 398579005351 dimer interaction site [polypeptide binding]; other site 398579005352 substrate-binding tunnel; other site 398579005353 active site 398579005354 catalytic site [active] 398579005355 substrate binding site [chemical binding]; other site 398579005356 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398579005357 HAMP domain; Region: HAMP; pfam00672 398579005358 dimerization interface [polypeptide binding]; other site 398579005359 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 398579005360 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579005361 ATP binding site [chemical binding]; other site 398579005362 Mg2+ binding site [ion binding]; other site 398579005363 G-X-G motif; other site 398579005364 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398579005365 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579005366 active site 398579005367 phosphorylation site [posttranslational modification] 398579005368 intermolecular recognition site; other site 398579005369 dimerization interface [polypeptide binding]; other site 398579005370 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 398579005371 Walker A motif; other site 398579005372 ATP binding site [chemical binding]; other site 398579005373 Walker B motif; other site 398579005374 arginine finger; other site 398579005375 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398579005376 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398579005377 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 398579005378 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 398579005379 homodimer interface [polypeptide binding]; other site 398579005380 NAD binding pocket [chemical binding]; other site 398579005381 ATP binding pocket [chemical binding]; other site 398579005382 Mg binding site [ion binding]; other site 398579005383 active-site loop [active] 398579005384 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 398579005385 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 398579005386 Thiamine-precursor transporter protein (ThiW); Region: ThiW; cl01952 398579005387 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579005388 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579005389 metal binding site [ion binding]; metal-binding site 398579005390 active site 398579005391 I-site; other site 398579005392 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 398579005393 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 398579005394 Sulfatase; Region: Sulfatase; cl17466 398579005395 hypothetical protein; Provisional; Region: PRK13689 398579005396 Nucleoid-associated protein [General function prediction only]; Region: COG3081 398579005397 nucleoid-associated protein NdpA; Validated; Region: PRK00378 398579005398 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 398579005399 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 398579005400 Peptidase family M23; Region: Peptidase_M23; pfam01551 398579005401 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 398579005402 ComEC family competence protein; Provisional; Region: PRK11539 398579005403 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 398579005404 Competence protein; Region: Competence; pfam03772 398579005405 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 398579005406 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 398579005407 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398579005408 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 398579005409 Walker A/P-loop; other site 398579005410 ATP binding site [chemical binding]; other site 398579005411 Q-loop/lid; other site 398579005412 ABC transporter signature motif; other site 398579005413 Walker B; other site 398579005414 D-loop; other site 398579005415 H-loop/switch region; other site 398579005416 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 398579005417 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 398579005418 Uncharacterized conserved protein [Function unknown]; Region: COG2835 398579005419 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 398579005420 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 398579005421 Thioredoxin; Region: Thioredoxin_4; pfam13462 398579005422 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 398579005423 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 398579005424 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 398579005425 Walker A motif; other site 398579005426 ATP binding site [chemical binding]; other site 398579005427 Walker B motif; other site 398579005428 arginine finger; other site 398579005429 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398579005430 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398579005431 Protein export membrane protein; Region: SecD_SecF; cl14618 398579005432 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398579005433 Protein export membrane protein; Region: SecD_SecF; cl14618 398579005434 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398579005435 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398579005436 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579005437 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 398579005438 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 398579005439 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 398579005440 dimer interface [polypeptide binding]; other site 398579005441 active site 398579005442 citrylCoA binding site [chemical binding]; other site 398579005443 NADH binding [chemical binding]; other site 398579005444 cationic pore residues; other site 398579005445 oxalacetate/citrate binding site [chemical binding]; other site 398579005446 coenzyme A binding site [chemical binding]; other site 398579005447 catalytic triad [active] 398579005448 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 398579005449 Iron-sulfur protein interface; other site 398579005450 proximal quinone binding site [chemical binding]; other site 398579005451 SdhD (CybS) interface [polypeptide binding]; other site 398579005452 proximal heme binding site [chemical binding]; other site 398579005453 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 398579005454 SdhC subunit interface [polypeptide binding]; other site 398579005455 proximal heme binding site [chemical binding]; other site 398579005456 cardiolipin binding site; other site 398579005457 Iron-sulfur protein interface; other site 398579005458 proximal quinone binding site [chemical binding]; other site 398579005459 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 398579005460 L-aspartate oxidase; Provisional; Region: PRK06175 398579005461 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 398579005462 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 398579005463 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 398579005464 catalytic loop [active] 398579005465 iron binding site [ion binding]; other site 398579005466 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 398579005467 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 398579005468 TPP-binding site [chemical binding]; other site 398579005469 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 398579005470 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 398579005471 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 398579005472 E3 interaction surface; other site 398579005473 lipoyl attachment site [posttranslational modification]; other site 398579005474 e3 binding domain; Region: E3_binding; pfam02817 398579005475 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 398579005476 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 398579005477 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 398579005478 CoA-ligase; Region: Ligase_CoA; pfam00549 398579005479 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 398579005480 CoA binding domain; Region: CoA_binding; pfam02629 398579005481 CoA-ligase; Region: Ligase_CoA; pfam00549 398579005482 Predicted permeases [General function prediction only]; Region: COG0679 398579005483 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 398579005484 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 398579005485 active site 398579005486 FMN binding site [chemical binding]; other site 398579005487 substrate binding site [chemical binding]; other site 398579005488 3Fe-4S cluster binding site [ion binding]; other site 398579005489 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398579005490 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398579005491 ferric uptake regulator; Provisional; Region: fur; PRK09462 398579005492 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 398579005493 metal binding site 2 [ion binding]; metal-binding site 398579005494 putative DNA binding helix; other site 398579005495 metal binding site 1 [ion binding]; metal-binding site 398579005496 dimer interface [polypeptide binding]; other site 398579005497 structural Zn2+ binding site [ion binding]; other site 398579005498 NAD-dependent deacetylase; Provisional; Region: PRK00481 398579005499 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 398579005500 NAD+ binding site [chemical binding]; other site 398579005501 substrate binding site [chemical binding]; other site 398579005502 Zn binding site [ion binding]; other site 398579005503 AAA domain; Region: AAA_33; pfam13671 398579005504 AAA domain; Region: AAA_17; cl17253 398579005505 elongation factor G; Reviewed; Region: PRK00007 398579005506 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 398579005507 G1 box; other site 398579005508 putative GEF interaction site [polypeptide binding]; other site 398579005509 GTP/Mg2+ binding site [chemical binding]; other site 398579005510 Switch I region; other site 398579005511 G2 box; other site 398579005512 G3 box; other site 398579005513 Switch II region; other site 398579005514 G4 box; other site 398579005515 G5 box; other site 398579005516 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 398579005517 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 398579005518 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 398579005519 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 398579005520 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 398579005521 inhibitor-cofactor binding pocket; inhibition site 398579005522 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579005523 catalytic residue [active] 398579005524 biotin synthase; Provisional; Region: PRK15108 398579005525 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 398579005526 FeS/SAM binding site; other site 398579005527 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 398579005528 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 398579005529 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 398579005530 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398579005531 catalytic residue [active] 398579005532 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 398579005533 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 398579005534 S-adenosylmethionine binding site [chemical binding]; other site 398579005535 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 398579005536 AAA domain; Region: AAA_26; pfam13500 398579005537 heat shock protein HtpX; Provisional; Region: PRK05457 398579005538 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 398579005539 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 398579005540 [4Fe-4S] binding site [ion binding]; other site 398579005541 molybdopterin cofactor binding site; other site 398579005542 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 398579005543 molybdopterin cofactor binding site; other site 398579005544 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 398579005545 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 398579005546 active site 398579005547 SAM binding site [chemical binding]; other site 398579005548 homodimer interface [polypeptide binding]; other site 398579005549 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 398579005550 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 398579005551 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 398579005552 ANTAR domain; Region: ANTAR; pfam03861 398579005553 nitrite reductase subunit NirD; Provisional; Region: PRK14989 398579005554 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398579005555 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 398579005556 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 398579005557 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 398579005558 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 398579005559 putative substrate translocation pore; other site 398579005560 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 398579005561 active site 398579005562 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 398579005563 Catalytic domain of Protein Kinases; Region: PKc; cd00180 398579005564 active site 398579005565 ATP binding site [chemical binding]; other site 398579005566 substrate binding site [chemical binding]; other site 398579005567 activation loop (A-loop); other site 398579005568 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 398579005569 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 398579005570 Curlin associated repeat; Region: Curlin_rpt; pfam07012 398579005571 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 398579005572 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 398579005573 DNA binding residues [nucleotide binding] 398579005574 dimerization interface [polypeptide binding]; other site 398579005575 Curli assembly protein CsgE; Region: CsgE; pfam10627 398579005576 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 398579005577 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 398579005578 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398579005579 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398579005580 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 398579005581 nucleotide binding site/active site [active] 398579005582 HIT family signature motif; other site 398579005583 catalytic residue [active] 398579005584 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 398579005585 CoenzymeA binding site [chemical binding]; other site 398579005586 subunit interaction site [polypeptide binding]; other site 398579005587 PHB binding site; other site 398579005588 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 398579005589 CoenzymeA binding site [chemical binding]; other site 398579005590 subunit interaction site [polypeptide binding]; other site 398579005591 PHB binding site; other site 398579005592 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 398579005593 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 398579005594 putative dimer interface [polypeptide binding]; other site 398579005595 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 398579005596 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 398579005597 N-terminal plug; other site 398579005598 ligand-binding site [chemical binding]; other site 398579005599 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 398579005600 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; cl17270 398579005601 active site 398579005602 ATP binding site [chemical binding]; other site 398579005603 Phosphotransferase enzyme family; Region: APH; pfam01636 398579005604 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; cl17270 398579005605 substrate binding site [chemical binding]; other site 398579005606 DoxX; Region: DoxX; pfam07681 398579005607 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 398579005608 putative FMN binding site [chemical binding]; other site 398579005609 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 398579005610 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398579005611 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398579005612 Walker A/P-loop; other site 398579005613 ATP binding site [chemical binding]; other site 398579005614 Q-loop/lid; other site 398579005615 ABC transporter signature motif; other site 398579005616 Walker B; other site 398579005617 D-loop; other site 398579005618 H-loop/switch region; other site 398579005619 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 398579005620 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579005621 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398579005622 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579005623 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398579005624 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579005625 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 398579005626 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 398579005627 FtsX-like permease family; Region: FtsX; pfam02687 398579005628 Ion channel; Region: Ion_trans_2; pfam07885 398579005629 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 398579005630 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 398579005631 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 398579005632 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 398579005633 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 398579005634 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 398579005635 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 398579005636 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 398579005637 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 398579005638 active site 398579005639 phosphate binding residues; other site 398579005640 catalytic residues [active] 398579005641 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 398579005642 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 398579005643 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398579005644 active site 398579005645 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 398579005646 dUMP phosphatase; Provisional; Region: PRK09449 398579005647 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 398579005648 motif II; other site 398579005649 Protein of unknown function (DUF938); Region: DUF938; pfam06080 398579005650 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 398579005651 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 398579005652 active site 398579005653 Zn binding site [ion binding]; other site 398579005654 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 398579005655 trimer interface [polypeptide binding]; other site 398579005656 YadA-like C-terminal region; Region: YadA; pfam03895 398579005657 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 398579005658 salt bridge; other site 398579005659 non-specific DNA binding site [nucleotide binding]; other site 398579005660 sequence-specific DNA binding site [nucleotide binding]; other site 398579005661 PAS domain; Region: PAS_9; pfam13426 398579005662 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 398579005663 putative active site [active] 398579005664 heme pocket [chemical binding]; other site 398579005665 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 398579005666 HAMP domain; Region: HAMP; pfam00672 398579005667 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398579005668 dimer interface [polypeptide binding]; other site 398579005669 putative CheW interface [polypeptide binding]; other site 398579005670 Predicted permeases [General function prediction only]; Region: RarD; COG2962 398579005671 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 398579005672 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 398579005673 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 398579005674 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 398579005675 active site 398579005676 tetramer interface [polypeptide binding]; other site 398579005677 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 398579005678 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 398579005679 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 398579005680 Protein of unknown function, DUF482; Region: DUF482; pfam04339 398579005681 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398579005682 Restriction endonuclease; Region: Mrr_cat; pfam04471 398579005683 HerA helicase [Replication, recombination, and repair]; Region: COG0433 398579005684 Domain of unknown function DUF87; Region: DUF87; pfam01935 398579005685 AAA domain; Region: AAA_21; pfam13304 398579005686 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 398579005687 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 398579005688 dimer interface [polypeptide binding]; other site 398579005689 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 398579005690 active site 398579005691 Fe binding site [ion binding]; other site 398579005692 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 398579005693 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579005694 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579005695 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 398579005696 dimerization interface [polypeptide binding]; other site 398579005697 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 398579005698 Putative transmembrane protein (PGPGW); Region: PGPGW; pfam09656 398579005699 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398579005700 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 398579005701 substrate binding pocket [chemical binding]; other site 398579005702 membrane-bound complex binding site; other site 398579005703 hinge residues; other site 398579005704 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398579005705 hypothetical protein; Provisional; Region: PRK11770 398579005706 Domain of unknown function (DUF307); Region: DUF307; pfam03733 398579005707 Domain of unknown function (DUF307); Region: DUF307; pfam03733 398579005708 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 398579005709 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 398579005710 catalytic residue [active] 398579005711 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 398579005712 phage exclusion protein Lit; Provisional; Region: PRK09672 398579005713 Peptidase U49; Region: Peptidase_U49; pfam10463 398579005714 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 398579005715 non-specific DNA binding site [nucleotide binding]; other site 398579005716 salt bridge; other site 398579005717 sequence-specific DNA binding site [nucleotide binding]; other site 398579005718 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 398579005719 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 398579005720 ATP binding site [chemical binding]; other site 398579005721 putative Mg++ binding site [ion binding]; other site 398579005722 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 398579005723 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 398579005724 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 398579005725 active site 398579005726 catalytic residues [active] 398579005727 DNA binding site [nucleotide binding] 398579005728 Int/Topo IB signature motif; other site 398579005729 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 398579005730 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398579005731 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 398579005732 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398579005733 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579005734 active site 398579005735 phosphorylation site [posttranslational modification] 398579005736 intermolecular recognition site; other site 398579005737 dimerization interface [polypeptide binding]; other site 398579005738 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 398579005739 Transglycosylase SLT domain; Region: SLT_2; pfam13406 398579005740 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 398579005741 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 398579005742 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398579005743 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 398579005744 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 398579005745 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 398579005746 Protein of unknown function (DUF3389); Region: DUF3389; pfam11869 398579005747 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 398579005748 putative hydrolase; Provisional; Region: PRK11460 398579005749 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 398579005750 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 398579005751 active site 398579005752 metal binding site [ion binding]; metal-binding site 398579005753 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 398579005754 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 398579005755 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 398579005756 putative dimer interface [polypeptide binding]; other site 398579005757 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 398579005758 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 398579005759 putative valine binding site [chemical binding]; other site 398579005760 dimer interface [polypeptide binding]; other site 398579005761 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 398579005762 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08979 398579005763 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398579005764 PYR/PP interface [polypeptide binding]; other site 398579005765 dimer interface [polypeptide binding]; other site 398579005766 TPP binding site [chemical binding]; other site 398579005767 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 398579005768 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 398579005769 TPP-binding site [chemical binding]; other site 398579005770 dimer interface [polypeptide binding]; other site 398579005771 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 398579005772 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 398579005773 putative substrate translocation pore; other site 398579005774 Uncharacterized conserved protein [Function unknown]; Region: COG0327 398579005775 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 398579005776 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 398579005777 Integrase core domain; Region: rve; pfam00665 398579005778 Integrase core domain; Region: rve_3; pfam13683 398579005779 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 398579005780 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 398579005781 active site 398579005782 HIGH motif; other site 398579005783 KMSKS motif; other site 398579005784 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 398579005785 tRNA binding surface [nucleotide binding]; other site 398579005786 anticodon binding site; other site 398579005787 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 398579005788 dimer interface [polypeptide binding]; other site 398579005789 putative tRNA-binding site [nucleotide binding]; other site 398579005790 antiporter inner membrane protein; Provisional; Region: PRK11670 398579005791 Domain of unknown function DUF59; Region: DUF59; cl00941 398579005792 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 398579005793 Walker A motif; other site 398579005794 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 398579005795 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 398579005796 ATP-binding site [chemical binding]; other site 398579005797 Sugar specificity; other site 398579005798 Pyrimidine base specificity; other site 398579005799 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 398579005800 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 398579005801 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 398579005802 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579005803 catalytic residue [active] 398579005804 YceG-like family; Region: YceG; pfam02618 398579005805 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 398579005806 dimerization interface [polypeptide binding]; other site 398579005807 thymidylate kinase; Validated; Region: tmk; PRK00698 398579005808 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 398579005809 TMP-binding site; other site 398579005810 ATP-binding site [chemical binding]; other site 398579005811 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 398579005812 DNA polymerase III subunit delta'; Validated; Region: PRK08485 398579005813 PilZ domain; Region: PilZ; cl01260 398579005814 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 398579005815 active site 398579005816 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 398579005817 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 398579005818 S-adenosylmethionine binding site [chemical binding]; other site 398579005819 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 398579005820 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 398579005821 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 398579005822 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 398579005823 mce related protein; Region: MCE; pfam02470 398579005824 mce related protein; Region: MCE; pfam02470 398579005825 mce related protein; Region: MCE; pfam02470 398579005826 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 398579005827 mce related protein; Region: MCE; pfam02470 398579005828 mce related protein; Region: MCE; pfam02470 398579005829 Paraquat-inducible protein A; Region: PqiA; pfam04403 398579005830 Paraquat-inducible protein A; Region: PqiA; pfam04403 398579005831 YebG protein; Region: YebG; pfam07130 398579005832 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 398579005833 GAF domain; Region: GAF_2; pfam13185 398579005834 ProP expression regulator; Provisional; Region: PRK04950 398579005835 ProQ/FINO family; Region: ProQ; smart00945 398579005836 carboxy-terminal protease; Provisional; Region: PRK11186 398579005837 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 398579005838 protein binding site [polypeptide binding]; other site 398579005839 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 398579005840 Catalytic dyad [active] 398579005841 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 398579005842 aminopeptidase N; Provisional; Region: pepN; PRK14015 398579005843 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 398579005844 active site 398579005845 Zn binding site [ion binding]; other site 398579005846 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 398579005847 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 398579005848 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 398579005849 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 398579005850 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 398579005851 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 398579005852 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 398579005853 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 398579005854 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 398579005855 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 398579005856 quinone interaction residues [chemical binding]; other site 398579005857 active site 398579005858 catalytic residues [active] 398579005859 FMN binding site [chemical binding]; other site 398579005860 substrate binding site [chemical binding]; other site 398579005861 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 398579005862 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 398579005863 active site 398579005864 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 398579005865 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 398579005866 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 398579005867 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 398579005868 S-adenosylmethionine binding site [chemical binding]; other site 398579005869 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 398579005870 ABC transporter ATPase component; Reviewed; Region: PRK11147 398579005871 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398579005872 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398579005873 ABC transporter; Region: ABC_tran_2; pfam12848 398579005874 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398579005875 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 398579005876 ribosome modulation factor; Provisional; Region: PRK14563 398579005877 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 398579005878 active site 1 [active] 398579005879 dimer interface [polypeptide binding]; other site 398579005880 active site 2 [active] 398579005881 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 398579005882 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 398579005883 response regulator; Provisional; Region: PRK09483 398579005884 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579005885 active site 398579005886 phosphorylation site [posttranslational modification] 398579005887 intermolecular recognition site; other site 398579005888 dimerization interface [polypeptide binding]; other site 398579005889 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 398579005890 DNA binding residues [nucleotide binding] 398579005891 dimerization interface [polypeptide binding]; other site 398579005892 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 398579005893 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 398579005894 GIY-YIG motif/motif A; other site 398579005895 active site 398579005896 catalytic site [active] 398579005897 putative DNA binding site [nucleotide binding]; other site 398579005898 metal binding site [ion binding]; metal-binding site 398579005899 UvrB/uvrC motif; Region: UVR; pfam02151 398579005900 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 398579005901 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 398579005902 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 398579005903 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 398579005904 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 398579005905 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 398579005906 Peptidase M15; Region: Peptidase_M15_3; cl01194 398579005907 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 398579005908 5S rRNA interface [nucleotide binding]; other site 398579005909 CTC domain interface [polypeptide binding]; other site 398579005910 L16 interface [polypeptide binding]; other site 398579005911 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 398579005912 SpoVR family protein; Provisional; Region: PRK11767 398579005913 hypothetical protein; Provisional; Region: PRK05325 398579005914 PrkA family serine protein kinase; Provisional; Region: PRK15455 398579005915 AAA ATPase domain; Region: AAA_16; pfam13191 398579005916 Walker A motif; other site 398579005917 ATP binding site [chemical binding]; other site 398579005918 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 398579005919 superoxide dismutase; Provisional; Region: PRK10543 398579005920 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 398579005921 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 398579005922 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 398579005923 putative GSH binding site [chemical binding]; other site 398579005924 catalytic residues [active] 398579005925 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 398579005926 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3249 398579005927 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 398579005928 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 398579005929 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 398579005930 Walker A motif; other site 398579005931 ATP binding site [chemical binding]; other site 398579005932 Walker B motif; other site 398579005933 arginine finger; other site 398579005934 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 398579005935 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 398579005936 ArsC family; Region: ArsC; pfam03960 398579005937 catalytic residues [active] 398579005938 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 398579005939 Peptidase family M48; Region: Peptidase_M48; cl12018 398579005940 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 398579005941 binding surface 398579005942 TPR motif; other site 398579005943 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 398579005944 binding surface 398579005945 TPR motif; other site 398579005946 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 398579005947 CPxP motif; other site 398579005948 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 398579005949 Domain of unknown function DUF20; Region: UPF0118; pfam01594 398579005950 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 398579005951 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579005952 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 398579005953 dimerization interface [polypeptide binding]; other site 398579005954 Lysine efflux permease [General function prediction only]; Region: COG1279 398579005955 Integrase core domain; Region: rve; pfam00665 398579005956 Integrase core domain; Region: rve_3; pfam13683 398579005957 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 398579005958 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 398579005959 catalytic triad [active] 398579005960 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 398579005961 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 398579005962 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 398579005963 dihydrodipicolinate synthase; Region: dapA; TIGR00674 398579005964 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 398579005965 dimer interface [polypeptide binding]; other site 398579005966 active site 398579005967 catalytic residue [active] 398579005968 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 398579005969 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 398579005970 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398579005971 HAND; Region: HAND; pfam09110 398579005972 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579005973 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398579005974 Protein export membrane protein; Region: SecD_SecF; cl14618 398579005975 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 398579005976 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 398579005977 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 398579005978 Ligand binding site; other site 398579005979 oligomer interface; other site 398579005980 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 398579005981 active site clefts [active] 398579005982 zinc binding site [ion binding]; other site 398579005983 dimer interface [polypeptide binding]; other site 398579005984 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 398579005985 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 398579005986 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 398579005987 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 398579005988 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 398579005989 metal binding site [ion binding]; metal-binding site 398579005990 dimer interface [polypeptide binding]; other site 398579005991 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 398579005992 ArsC family; Region: ArsC; pfam03960 398579005993 putative catalytic residues [active] 398579005994 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 398579005995 HPr interaction site; other site 398579005996 glycerol kinase (GK) interaction site [polypeptide binding]; other site 398579005997 active site 398579005998 phosphorylation site [posttranslational modification] 398579005999 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 398579006000 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 398579006001 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 398579006002 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 398579006003 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 398579006004 dimerization domain swap beta strand [polypeptide binding]; other site 398579006005 regulatory protein interface [polypeptide binding]; other site 398579006006 active site 398579006007 regulatory phosphorylation site [posttranslational modification]; other site 398579006008 Uncharacterized conserved protein [Function unknown]; Region: COG3603 398579006009 Family description; Region: ACT_7; pfam13840 398579006010 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 398579006011 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 398579006012 dimerization interface [polypeptide binding]; other site 398579006013 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398579006014 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398579006015 dimer interface [polypeptide binding]; other site 398579006016 putative CheW interface [polypeptide binding]; other site 398579006017 Protein of unknown function (DUF3334); Region: DUF3334; pfam11813 398579006018 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 398579006019 active site 398579006020 catalytic site [active] 398579006021 substrate binding site [chemical binding]; other site 398579006022 Uncharacterized conserved protein [Function unknown]; Region: COG2850 398579006023 Cupin-like domain; Region: Cupin_8; pfam13621 398579006024 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 398579006025 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 398579006026 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398579006027 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 398579006028 non-specific DNA binding site [nucleotide binding]; other site 398579006029 salt bridge; other site 398579006030 sequence-specific DNA binding site [nucleotide binding]; other site 398579006031 Protein of unknown function (DUF3612); Region: DUF3612; pfam12268 398579006032 malate synthase; Provisional; Region: PRK08951 398579006033 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 398579006034 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 398579006035 S-adenosylmethionine binding site [chemical binding]; other site 398579006036 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 398579006037 Sulfatase; Region: Sulfatase; cl17466 398579006038 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 398579006039 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 398579006040 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 398579006041 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 398579006042 Homeodomain-like domain; Region: HTH_23; pfam13384 398579006043 Winged helix-turn helix; Region: HTH_29; pfam13551 398579006044 Homeodomain-like domain; Region: HTH_32; pfam13565 398579006045 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 398579006046 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 398579006047 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 398579006048 Walker A motif; other site 398579006049 ATP binding site [chemical binding]; other site 398579006050 Walker B motif; other site 398579006051 arginine finger; other site 398579006052 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 398579006053 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 398579006054 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 398579006055 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 398579006056 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398579006057 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 398579006058 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 398579006059 TadE-like protein; Region: TadE; pfam07811 398579006060 AAA domain; Region: AAA_31; pfam13614 398579006061 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 398579006062 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 398579006063 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 398579006064 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 398579006065 ATP binding site [chemical binding]; other site 398579006066 Walker A motif; other site 398579006067 hexamer interface [polypeptide binding]; other site 398579006068 Walker B motif; other site 398579006069 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 398579006070 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398579006071 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 398579006072 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398579006073 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 398579006074 binding surface 398579006075 TPR motif; other site 398579006076 TPR repeat; Region: TPR_11; pfam13414 398579006077 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 398579006078 TPR motif; other site 398579006079 binding surface 398579006080 TPR repeat; Region: TPR_11; pfam13414 398579006081 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 398579006082 binding surface 398579006083 TPR motif; other site 398579006084 TPR repeat; Region: TPR_11; pfam13414 398579006085 hydrogenase nickel incorporation protein; Provisional; Region: hypA; PRK00564 398579006086 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 398579006087 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 398579006088 dimerization interface [polypeptide binding]; other site 398579006089 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 398579006090 ATP binding site [chemical binding]; other site 398579006091 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 398579006092 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 398579006093 HupF/HypC family; Region: HupF_HypC; pfam01455 398579006094 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 398579006095 Acylphosphatase; Region: Acylphosphatase; pfam00708 398579006096 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 398579006097 HypF finger; Region: zf-HYPF; pfam07503 398579006098 HypF finger; Region: zf-HYPF; pfam07503 398579006099 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 398579006100 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 398579006101 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 398579006102 putative substrate-binding site; other site 398579006103 nickel binding site [ion binding]; other site 398579006104 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 398579006105 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 398579006106 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 398579006107 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 398579006108 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 398579006109 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 398579006110 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 398579006111 putative dimer interface [polypeptide binding]; other site 398579006112 putative anticodon binding site; other site 398579006113 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 398579006114 homodimer interface [polypeptide binding]; other site 398579006115 motif 1; other site 398579006116 motif 2; other site 398579006117 active site 398579006118 motif 3; other site 398579006119 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 398579006120 putative active site [active] 398579006121 putative CoA binding site [chemical binding]; other site 398579006122 nudix motif; other site 398579006123 metal binding site [ion binding]; metal-binding site 398579006124 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 398579006125 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 398579006126 chorismate binding enzyme; Region: Chorismate_bind; cl10555 398579006127 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 398579006128 Fumarase C-terminus; Region: Fumerase_C; pfam05683 398579006129 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 398579006130 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 398579006131 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398579006132 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 398579006133 tetramer interface [polypeptide binding]; other site 398579006134 active site 398579006135 Mg2+/Mn2+ binding site [ion binding]; other site 398579006136 isocitrate lyase; Region: PLN02892 398579006137 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579006138 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579006139 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 398579006140 substrate binding pocket [chemical binding]; other site 398579006141 dimerization interface [polypeptide binding]; other site 398579006142 malate synthase G; Provisional; Region: PRK02999 398579006143 active site 398579006144 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 398579006145 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 398579006146 putative catalytic cysteine [active] 398579006147 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 398579006148 putative active site [active] 398579006149 metal binding site [ion binding]; metal-binding site 398579006150 hypothetical protein; Provisional; Region: PRK11111 398579006151 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 398579006152 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398579006153 Zn2+ binding site [ion binding]; other site 398579006154 Mg2+ binding site [ion binding]; other site 398579006155 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 398579006156 5'-nucleotidase; Provisional; Region: PRK03826 398579006157 aminotransferase AlaT; Validated; Region: PRK09265 398579006158 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 398579006159 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579006160 homodimer interface [polypeptide binding]; other site 398579006161 catalytic residue [active] 398579006162 elongation factor P; Validated; Region: PRK00529 398579006163 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 398579006164 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 398579006165 RNA binding site [nucleotide binding]; other site 398579006166 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 398579006167 RNA binding site [nucleotide binding]; other site 398579006168 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 398579006169 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 398579006170 flavodoxin FldA; Validated; Region: PRK09267 398579006171 LexA regulated protein; Provisional; Region: PRK11675 398579006172 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 398579006173 PGAP1-like protein; Region: PGAP1; pfam07819 398579006174 acyl-CoA esterase; Provisional; Region: PRK10673 398579006175 replication initiation regulator SeqA; Provisional; Region: PRK11187 398579006176 phosphoglucomutase; Validated; Region: PRK07564 398579006177 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 398579006178 active site 398579006179 substrate binding site [chemical binding]; other site 398579006180 metal binding site [ion binding]; metal-binding site 398579006181 TIR domain; Region: TIR_2; pfam13676 398579006182 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 398579006183 TIR domain; Region: TIR_2; pfam13676 398579006184 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 398579006185 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 398579006186 catalytic loop [active] 398579006187 iron binding site [ion binding]; other site 398579006188 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 398579006189 dimer interface [polypeptide binding]; other site 398579006190 putative radical transfer pathway; other site 398579006191 diiron center [ion binding]; other site 398579006192 tyrosyl radical; other site 398579006193 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 398579006194 ATP cone domain; Region: ATP-cone; pfam03477 398579006195 Class I ribonucleotide reductase; Region: RNR_I; cd01679 398579006196 active site 398579006197 dimer interface [polypeptide binding]; other site 398579006198 catalytic residues [active] 398579006199 effector binding site; other site 398579006200 R2 peptide binding site; other site 398579006201 phosphoglycolate phosphatase; Provisional; Region: PRK13222 398579006202 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 398579006203 motif II; other site 398579006204 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 398579006205 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 398579006206 S-adenosylmethionine binding site [chemical binding]; other site 398579006207 DNA gyrase subunit A; Validated; Region: PRK05560 398579006208 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 398579006209 CAP-like domain; other site 398579006210 active site 398579006211 primary dimer interface [polypeptide binding]; other site 398579006212 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398579006213 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398579006214 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398579006215 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398579006216 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398579006217 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398579006218 Beta-lactamase; Region: Beta-lactamase; pfam00144 398579006219 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 398579006220 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 398579006221 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398579006222 catalytic residue [active] 398579006223 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 398579006224 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 398579006225 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579006226 homodimer interface [polypeptide binding]; other site 398579006227 catalytic residue [active] 398579006228 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 398579006229 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 398579006230 hinge; other site 398579006231 active site 398579006232 cytidylate kinase; Provisional; Region: cmk; PRK00023 398579006233 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 398579006234 CMP-binding site; other site 398579006235 The sites determining sugar specificity; other site 398579006236 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 398579006237 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 398579006238 RNA binding site [nucleotide binding]; other site 398579006239 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 398579006240 RNA binding site [nucleotide binding]; other site 398579006241 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 398579006242 RNA binding site [nucleotide binding]; other site 398579006243 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 398579006244 RNA binding site [nucleotide binding]; other site 398579006245 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 398579006246 RNA binding site [nucleotide binding]; other site 398579006247 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 398579006248 RNA binding site [nucleotide binding]; other site 398579006249 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 398579006250 IHF dimer interface [polypeptide binding]; other site 398579006251 IHF - DNA interface [nucleotide binding]; other site 398579006252 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 398579006253 tetratricopeptide repeat protein; Provisional; Region: PRK11788 398579006254 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 398579006255 binding surface 398579006256 TPR motif; other site 398579006257 chaperonin_like superfamily. 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. There are 2 main chaperonin groups. The symmetry of type I...; Region: chaperonin_like; cl02777 398579006258 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 398579006259 active site 398579006260 dimer interface [polypeptide binding]; other site 398579006261 short chain dehydrogenase; Provisional; Region: PRK07576 398579006262 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 398579006263 NAD(P) binding site [chemical binding]; other site 398579006264 substrate binding site [chemical binding]; other site 398579006265 homotetramer interface [polypeptide binding]; other site 398579006266 active site 398579006267 homodimer interface [polypeptide binding]; other site 398579006268 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 398579006269 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 398579006270 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 398579006271 Cl binding site [ion binding]; other site 398579006272 oligomer interface [polypeptide binding]; other site 398579006273 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 398579006274 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 398579006275 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398579006276 active site 398579006277 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 398579006278 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 398579006279 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 398579006280 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 398579006281 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 398579006282 domain interface [polypeptide binding]; other site 398579006283 putative active site [active] 398579006284 catalytic site [active] 398579006285 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 398579006286 domain interface [polypeptide binding]; other site 398579006287 putative active site [active] 398579006288 catalytic site [active] 398579006289 Uncharacterized conserved protein [Function unknown]; Region: COG3148 398579006290 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 398579006291 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579006292 active site 398579006293 phosphorylation site [posttranslational modification] 398579006294 intermolecular recognition site; other site 398579006295 dimerization interface [polypeptide binding]; other site 398579006296 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 398579006297 DNA binding residues [nucleotide binding] 398579006298 dimerization interface [polypeptide binding]; other site 398579006299 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 398579006300 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 398579006301 dimer interface [polypeptide binding]; other site 398579006302 phosphorylation site [posttranslational modification] 398579006303 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579006304 ATP binding site [chemical binding]; other site 398579006305 Mg2+ binding site [ion binding]; other site 398579006306 G-X-G motif; other site 398579006307 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 398579006308 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 398579006309 ApbE family; Region: ApbE; pfam02424 398579006310 This conserved region includes the FMN-binding site of the NqrC protein as well as the NosR and NirI regulatory proteins; Region: FMN_bind; smart00900 398579006311 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 398579006312 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398579006313 eyelet of channel; other site 398579006314 trimer interface [polypeptide binding]; other site 398579006315 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 398579006316 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 398579006317 active site 398579006318 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 398579006319 active site 398579006320 DNA binding site [nucleotide binding] 398579006321 Int/Topo IB signature motif; other site 398579006322 Ecdysteroid kinase; Region: EcKinase; cl17738 398579006323 Protein of unknown function (DUF2385); Region: DUF2385; cl11490 398579006324 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 398579006325 Zn binding site [ion binding]; other site 398579006326 C factor cell-cell signaling protein; Provisional; Region: PRK09009 398579006327 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 398579006328 NADP binding site [chemical binding]; other site 398579006329 homodimer interface [polypeptide binding]; other site 398579006330 active site 398579006331 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 398579006332 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 398579006333 ATP-grasp domain; Region: ATP-grasp_4; cl17255 398579006334 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 398579006335 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 398579006336 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 398579006337 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 398579006338 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 398579006339 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 398579006340 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 398579006341 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 398579006342 DsrC like protein; Region: DsrC; pfam04358 398579006343 DsrH like protein; Region: DsrH; pfam04077 398579006344 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 398579006345 sulfur relay protein TusD/DsrE; Region: sulf_tusD_dsrE; TIGR03012 398579006346 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 398579006347 YccA-like proteins; Region: YccA_like; cd10433 398579006348 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 398579006349 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579006350 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 398579006351 dimerization interface [polypeptide binding]; other site 398579006352 putative transporter; Provisional; Region: PRK11043 398579006353 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 398579006354 putative substrate translocation pore; other site 398579006355 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398579006356 tropinone reductase; Provisional; Region: PRK09242 398579006357 NAD(P) binding site [chemical binding]; other site 398579006358 active site 398579006359 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 398579006360 putative substrate translocation pore; other site 398579006361 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398579006362 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 398579006363 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 398579006364 active site 398579006365 catalytic residues [active] 398579006366 metal binding site [ion binding]; metal-binding site 398579006367 DmpG-like communication domain; Region: DmpG_comm; pfam07836 398579006368 acetaldehyde dehydrogenase; Validated; Region: PRK08300 398579006369 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 398579006370 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 398579006371 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398579006372 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 398579006373 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 398579006374 NAD(P) binding site [chemical binding]; other site 398579006375 catalytic residues [active] 398579006376 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 398579006377 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 398579006378 iron-sulfur cluster [ion binding]; other site 398579006379 [2Fe-2S] cluster binding site [ion binding]; other site 398579006380 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 398579006381 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398579006382 putative substrate translocation pore; other site 398579006383 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398579006384 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 398579006385 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398579006386 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 398579006387 acyl-activating enzyme (AAE) consensus motif; other site 398579006388 putative AMP binding site [chemical binding]; other site 398579006389 putative active site [active] 398579006390 putative CoA binding site [chemical binding]; other site 398579006391 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK07843 398579006392 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398579006393 Predicted oxidoreductase [General function prediction only]; Region: COG3573 398579006394 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 398579006395 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398579006396 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 398579006397 acyl-activating enzyme (AAE) consensus motif; other site 398579006398 putative AMP binding site [chemical binding]; other site 398579006399 putative active site [active] 398579006400 putative CoA binding site [chemical binding]; other site 398579006401 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 398579006402 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 398579006403 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 398579006404 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398579006405 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398579006406 active site 398579006407 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 398579006408 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 398579006409 FAD binding pocket [chemical binding]; other site 398579006410 FAD binding motif [chemical binding]; other site 398579006411 phosphate binding motif [ion binding]; other site 398579006412 beta-alpha-beta structure motif; other site 398579006413 NAD(p) ribose binding residues [chemical binding]; other site 398579006414 NAD binding pocket [chemical binding]; other site 398579006415 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 398579006416 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 398579006417 catalytic loop [active] 398579006418 iron binding site [ion binding]; other site 398579006419 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398579006420 classical (c) SDRs; Region: SDR_c; cd05233 398579006421 NAD(P) binding site [chemical binding]; other site 398579006422 active site 398579006423 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 398579006424 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 398579006425 FMN binding site [chemical binding]; other site 398579006426 active site 398579006427 substrate binding site [chemical binding]; other site 398579006428 catalytic residue [active] 398579006429 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 398579006430 Ligand binding site [chemical binding]; other site 398579006431 Electron transfer flavoprotein domain; Region: ETF; pfam01012 398579006432 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 398579006433 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 398579006434 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 398579006435 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398579006436 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 398579006437 DNA binding residues [nucleotide binding] 398579006438 dimerization interface [polypeptide binding]; other site 398579006439 enoyl-CoA hydratase; Provisional; Region: PRK08138 398579006440 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 398579006441 substrate binding site [chemical binding]; other site 398579006442 oxyanion hole (OAH) forming residues; other site 398579006443 trimer interface [polypeptide binding]; other site 398579006444 short chain dehydrogenase; Provisional; Region: PRK07856 398579006445 classical (c) SDRs; Region: SDR_c; cd05233 398579006446 NAD(P) binding site [chemical binding]; other site 398579006447 active site 398579006448 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 398579006449 active site 2 [active] 398579006450 active site 1 [active] 398579006451 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 398579006452 DUF35 OB-fold domain; Region: DUF35; pfam01796 398579006453 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398579006454 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 398579006455 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398579006456 active site 398579006457 SAV4209 is a Streptomyces avermitilis protein with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. The alpha- and...; Region: SAV4209; cd03455 398579006458 putative active site [active] 398579006459 putative catalytic site [active] 398579006460 lipid-transfer protein; Provisional; Region: PRK07855 398579006461 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 398579006462 active site 398579006463 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398579006464 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398579006465 active site 398579006466 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 398579006467 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398579006468 active site 398579006469 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 398579006470 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 398579006471 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 398579006472 active site 398579006473 Uncharacterized conserved protein [Function unknown]; Region: COG1683 398579006474 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 398579006475 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 398579006476 active site 398579006477 FMN binding site [chemical binding]; other site 398579006478 substrate binding site [chemical binding]; other site 398579006479 putative catalytic residue [active] 398579006480 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398579006481 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398579006482 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 398579006483 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 398579006484 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398579006485 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398579006486 NAD(P) binding site [chemical binding]; other site 398579006487 active site 398579006488 SnoaL-like domain; Region: SnoaL_4; pfam13577 398579006489 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 398579006490 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398579006491 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 398579006492 acyl-activating enzyme (AAE) consensus motif; other site 398579006493 putative AMP binding site [chemical binding]; other site 398579006494 putative active site [active] 398579006495 putative CoA binding site [chemical binding]; other site 398579006496 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 398579006497 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 398579006498 active site 398579006499 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 398579006500 DUF35 OB-fold domain; Region: DUF35; pfam01796 398579006501 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 398579006502 active site 2 [active] 398579006503 active site 1 [active] 398579006504 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 398579006505 N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_N_like; cd07252 398579006506 C-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_C_like; cd07237 398579006507 active site 398579006508 Fe binding site [ion binding]; other site 398579006509 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 398579006510 Coenzyme A transferase; Region: CoA_trans; cl17247 398579006511 enoyl-CoA hydratase; Provisional; Region: PRK08290 398579006512 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 398579006513 substrate binding site [chemical binding]; other site 398579006514 oxyanion hole (OAH) forming residues; other site 398579006515 trimer interface [polypeptide binding]; other site 398579006516 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 398579006517 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 398579006518 FMN binding site [chemical binding]; other site 398579006519 substrate binding site [chemical binding]; other site 398579006520 putative catalytic residue [active] 398579006521 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 398579006522 enoyl-CoA hydratase; Provisional; Region: PRK06495 398579006523 substrate binding site [chemical binding]; other site 398579006524 oxyanion hole (OAH) forming residues; other site 398579006525 trimer interface [polypeptide binding]; other site 398579006526 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; cl15762 398579006527 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398579006528 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 398579006529 FAD binding site [chemical binding]; other site 398579006530 substrate binding site [chemical binding]; other site 398579006531 catalytic base [active] 398579006532 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398579006533 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 398579006534 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398579006535 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398579006536 active site 398579006537 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 398579006538 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 398579006539 dimer interface [polypeptide binding]; other site 398579006540 active site 398579006541 short chain dehydrogenase; Provisional; Region: PRK07791 398579006542 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398579006543 NAD(P) binding site [chemical binding]; other site 398579006544 active site 398579006545 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 398579006546 Amidase; Region: Amidase; pfam01425 398579006547 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 398579006548 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 398579006549 short chain dehydrogenase; Provisional; Region: PRK07831 398579006550 classical (c) SDRs; Region: SDR_c; cd05233 398579006551 NAD(P) binding site [chemical binding]; other site 398579006552 active site 398579006553 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 398579006554 putative active site [active] 398579006555 putative catalytic site [active] 398579006556 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 398579006557 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 398579006558 dimer interface [polypeptide binding]; other site 398579006559 active site 398579006560 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 398579006561 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 398579006562 substrate binding site [chemical binding]; other site 398579006563 oxyanion hole (OAH) forming residues; other site 398579006564 trimer interface [polypeptide binding]; other site 398579006565 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 398579006566 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 398579006567 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398579006568 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 398579006569 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 398579006570 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398579006571 short chain dehydrogenase; Validated; Region: PRK07069 398579006572 NAD(P) binding site [chemical binding]; other site 398579006573 active site 398579006574 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 398579006575 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398579006576 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 398579006577 active site 398579006578 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 398579006579 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398579006580 active site 398579006581 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398579006582 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398579006583 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398579006584 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579006585 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 398579006586 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 398579006587 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 398579006588 DHHA2 domain; Region: DHHA2; pfam02833 398579006589 AAA domain; Region: AAA_32; pfam13654 398579006590 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 398579006591 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 398579006592 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 398579006593 Peptidase family U32; Region: Peptidase_U32; pfam01136 398579006594 Collagenase; Region: DUF3656; pfam12392 398579006595 Peptidase family U32; Region: Peptidase_U32; cl03113 398579006596 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 398579006597 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398579006598 Methyltransferase domain; Region: Methyltransf_23; pfam13489 398579006599 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 398579006600 S-adenosylmethionine binding site [chemical binding]; other site 398579006601 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 398579006602 cytosine deaminase; Provisional; Region: PRK09230 398579006603 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 398579006604 active site 398579006605 nucleobase-cation-symport-1 (NCS1) transporter CobB-like; solute-binding domain; Region: SLC-NCS1sbd_CobB-like; cd11484 398579006606 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 398579006607 Na binding site [ion binding]; other site 398579006608 putative substrate binding site [chemical binding]; other site 398579006609 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 398579006610 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 398579006611 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398579006612 putative substrate translocation pore; other site 398579006613 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 398579006614 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 398579006615 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398579006616 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579006617 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398579006618 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579006619 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 398579006620 Protein export membrane protein; Region: SecD_SecF; cl14618 398579006621 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 398579006622 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 398579006623 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 398579006624 active site 398579006625 DNA binding site [nucleotide binding] 398579006626 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 398579006627 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 398579006628 Catalytic site [active] 398579006629 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579006630 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579006631 metal binding site [ion binding]; metal-binding site 398579006632 active site 398579006633 I-site; other site 398579006634 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 398579006635 Helix-turn-helix domain; Region: HTH_18; pfam12833 398579006636 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 398579006637 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 398579006638 hypothetical protein; Provisional; Region: PRK04143 398579006639 ADP-ribose binding site [chemical binding]; other site 398579006640 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 398579006641 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 398579006642 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398579006643 active site 398579006644 trimethyllysine dioxygenase; Region: carnitine_TMLD; TIGR02410 398579006645 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cd00250 398579006646 substrate binding pocket [chemical binding]; other site 398579006647 active site 398579006648 iron coordination sites [ion binding]; other site 398579006649 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 398579006650 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 398579006651 tetramer interface [polypeptide binding]; other site 398579006652 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579006653 catalytic residue [active] 398579006654 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 398579006655 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 398579006656 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398579006657 Coenzyme A binding pocket [chemical binding]; other site 398579006658 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 398579006659 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 398579006660 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 398579006661 Int/Topo IB signature motif; other site 398579006662 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 398579006663 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 398579006664 Low-spin heme binding site [chemical binding]; other site 398579006665 Putative water exit pathway; other site 398579006666 Binuclear center (active site) [active] 398579006667 Putative proton exit pathway; other site 398579006668 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 398579006669 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 398579006670 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 398579006671 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 398579006672 Cytochrome c; Region: Cytochrom_C; pfam00034 398579006673 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 398579006674 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 398579006675 FixH; Region: FixH; pfam05751 398579006676 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 398579006677 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 398579006678 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 398579006679 metal-binding site [ion binding] 398579006680 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398579006681 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 398579006682 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 398579006683 Family description; Region: DsbD_2; pfam13386 398579006684 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 398579006685 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 398579006686 ligand binding site [chemical binding]; other site 398579006687 flexible hinge region; other site 398579006688 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 398579006689 putative switch regulator; other site 398579006690 non-specific DNA interactions [nucleotide binding]; other site 398579006691 DNA binding site [nucleotide binding] 398579006692 sequence specific DNA binding site [nucleotide binding]; other site 398579006693 putative cAMP binding site [chemical binding]; other site 398579006694 universal stress protein UspE; Provisional; Region: PRK11175 398579006695 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 398579006696 Ligand Binding Site [chemical binding]; other site 398579006697 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 398579006698 Ligand Binding Site [chemical binding]; other site 398579006699 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 398579006700 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 398579006701 Ligand Binding Site [chemical binding]; other site 398579006702 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 398579006703 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 398579006704 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 398579006705 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 398579006706 phosphate binding site [ion binding]; other site 398579006707 putative substrate binding pocket [chemical binding]; other site 398579006708 dimer interface [polypeptide binding]; other site 398579006709 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 398579006710 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 398579006711 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579006712 homodimer interface [polypeptide binding]; other site 398579006713 catalytic residue [active] 398579006714 seryl-tRNA synthetase; Provisional; Region: PRK05431 398579006715 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 398579006716 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 398579006717 dimer interface [polypeptide binding]; other site 398579006718 active site 398579006719 motif 1; other site 398579006720 motif 2; other site 398579006721 motif 3; other site 398579006722 camphor resistance protein CrcB; Provisional; Region: PRK14197 398579006723 recombination factor protein RarA; Reviewed; Region: PRK13342 398579006724 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 398579006725 Walker A motif; other site 398579006726 ATP binding site [chemical binding]; other site 398579006727 Walker B motif; other site 398579006728 arginine finger; other site 398579006729 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 398579006730 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 398579006731 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 398579006732 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 398579006733 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 398579006734 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 398579006735 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 398579006736 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 398579006737 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 398579006738 putative DNA binding site [nucleotide binding]; other site 398579006739 putative Zn2+ binding site [ion binding]; other site 398579006740 AsnC family; Region: AsnC_trans_reg; pfam01037 398579006741 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 398579006742 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 398579006743 hexamer interface [polypeptide binding]; other site 398579006744 ligand binding site [chemical binding]; other site 398579006745 putative active site [active] 398579006746 NAD(P) binding site [chemical binding]; other site 398579006747 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398579006748 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579006749 active site 398579006750 phosphorylation site [posttranslational modification] 398579006751 intermolecular recognition site; other site 398579006752 dimerization interface [polypeptide binding]; other site 398579006753 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 398579006754 DNA binding site [nucleotide binding] 398579006755 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 398579006756 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 398579006757 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 398579006758 ATP binding site [chemical binding]; other site 398579006759 putative Mg++ binding site [ion binding]; other site 398579006760 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 398579006761 nucleotide binding region [chemical binding]; other site 398579006762 ATP-binding site [chemical binding]; other site 398579006763 hypothetical protein; Provisional; Region: PRK05421 398579006764 putative catalytic site [active] 398579006765 putative metal binding site [ion binding]; other site 398579006766 putative phosphate binding site [ion binding]; other site 398579006767 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 398579006768 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 398579006769 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 398579006770 putative active site [active] 398579006771 catalytic site [active] 398579006772 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 398579006773 putative active site [active] 398579006774 catalytic site [active] 398579006775 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 398579006776 Nitrate and nitrite sensing; Region: NIT; pfam08376 398579006777 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 398579006778 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 398579006779 dimerization interface [polypeptide binding]; other site 398579006780 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398579006781 dimer interface [polypeptide binding]; other site 398579006782 putative CheW interface [polypeptide binding]; other site 398579006783 quinolinate synthetase; Provisional; Region: PRK09375 398579006784 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 398579006785 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 398579006786 E3 interaction surface; other site 398579006787 lipoyl attachment site [posttranslational modification]; other site 398579006788 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 398579006789 E3 interaction surface; other site 398579006790 lipoyl attachment site [posttranslational modification]; other site 398579006791 e3 binding domain; Region: E3_binding; pfam02817 398579006792 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 398579006793 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 398579006794 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 398579006795 alpha subunit interface [polypeptide binding]; other site 398579006796 TPP binding site [chemical binding]; other site 398579006797 heterodimer interface [polypeptide binding]; other site 398579006798 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398579006799 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 398579006800 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 398579006801 tetramer interface [polypeptide binding]; other site 398579006802 TPP-binding site [chemical binding]; other site 398579006803 heterodimer interface [polypeptide binding]; other site 398579006804 phosphorylation loop region [posttranslational modification] 398579006805 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 398579006806 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 398579006807 putative active site [active] 398579006808 Zn binding site [ion binding]; other site 398579006809 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 398579006810 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 398579006811 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 398579006812 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 398579006813 active site 398579006814 FMN binding site [chemical binding]; other site 398579006815 2,4-decadienoyl-CoA binding site; other site 398579006816 catalytic residue [active] 398579006817 4Fe-4S cluster binding site [ion binding]; other site 398579006818 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 398579006819 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398579006820 protease 4; Provisional; Region: PRK10949 398579006821 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 398579006822 tandem repeat interface [polypeptide binding]; other site 398579006823 oligomer interface [polypeptide binding]; other site 398579006824 active site residues [active] 398579006825 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 398579006826 tandem repeat interface [polypeptide binding]; other site 398579006827 oligomer interface [polypeptide binding]; other site 398579006828 active site residues [active] 398579006829 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 398579006830 active site 398579006831 homodimer interface [polypeptide binding]; other site 398579006832 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 398579006833 Double zinc ribbon; Region: DZR; pfam12773 398579006834 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 398579006835 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 398579006836 putative active site [active] 398579006837 Zn binding site [ion binding]; other site 398579006838 thioredoxin reductase; Provisional; Region: PRK10262 398579006839 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398579006840 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398579006841 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398579006842 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398579006843 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 398579006844 23S rRNA binding site [nucleotide binding]; other site 398579006845 L21 binding site [polypeptide binding]; other site 398579006846 L13 binding site [polypeptide binding]; other site 398579006847 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 398579006848 translation initiation factor IF-3; Region: infC; TIGR00168 398579006849 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 398579006850 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 398579006851 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 398579006852 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 398579006853 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 398579006854 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 398579006855 active site 398579006856 dimer interface [polypeptide binding]; other site 398579006857 motif 1; other site 398579006858 motif 2; other site 398579006859 motif 3; other site 398579006860 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 398579006861 anticodon binding site; other site 398579006862 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398579006863 pteridine reductase; Provisional; Region: PRK09135 398579006864 NAD(P) binding site [chemical binding]; other site 398579006865 active site 398579006866 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 398579006867 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 398579006868 Lumazine binding domain; Region: Lum_binding; pfam00677 398579006869 Lumazine binding domain; Region: Lum_binding; pfam00677 398579006870 multidrug efflux protein; Reviewed; Region: PRK01766 398579006871 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 398579006872 cation binding site [ion binding]; other site 398579006873 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 398579006874 substrate binding site [chemical binding]; other site 398579006875 putative transporter; Provisional; Region: PRK03699 398579006876 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 398579006877 putative substrate translocation pore; other site 398579006878 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 398579006879 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 398579006880 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 398579006881 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 398579006882 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 398579006883 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 398579006884 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398579006885 Coenzyme A binding pocket [chemical binding]; other site 398579006886 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 398579006887 B12 binding site [chemical binding]; other site 398579006888 Radical SAM superfamily; Region: Radical_SAM; pfam04055 398579006889 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 398579006890 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398579006891 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 398579006892 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 398579006893 putative substrate translocation pore; other site 398579006894 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398579006895 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 398579006896 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 398579006897 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 398579006898 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 398579006899 putative ligand binding site [chemical binding]; other site 398579006900 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398579006901 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398579006902 TM-ABC transporter signature motif; other site 398579006903 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398579006904 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 398579006905 Walker A/P-loop; other site 398579006906 ATP binding site [chemical binding]; other site 398579006907 Q-loop/lid; other site 398579006908 ABC transporter signature motif; other site 398579006909 Walker B; other site 398579006910 D-loop; other site 398579006911 H-loop/switch region; other site 398579006912 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 398579006913 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 398579006914 N- and C-terminal domain interface [polypeptide binding]; other site 398579006915 D-xylulose kinase; Region: XylB; TIGR01312 398579006916 active site 398579006917 MgATP binding site [chemical binding]; other site 398579006918 catalytic site [active] 398579006919 metal binding site [ion binding]; metal-binding site 398579006920 xylulose binding site [chemical binding]; other site 398579006921 putative homodimer interface [polypeptide binding]; other site 398579006922 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 398579006923 L-idonate 5-dehydrogenase; Region: PLN02702 398579006924 inhibitor binding site; inhibition site 398579006925 catalytic Zn binding site [ion binding]; other site 398579006926 structural Zn binding site [ion binding]; other site 398579006927 NADP binding site [chemical binding]; other site 398579006928 tetramer interface [polypeptide binding]; other site 398579006929 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398579006930 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398579006931 DNA binding site [nucleotide binding] 398579006932 domain linker motif; other site 398579006933 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 398579006934 dimerization interface [polypeptide binding]; other site 398579006935 ligand binding site [chemical binding]; other site 398579006936 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 398579006937 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398579006938 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398579006939 Walker A/P-loop; other site 398579006940 ATP binding site [chemical binding]; other site 398579006941 ABC transporter signature motif; other site 398579006942 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398579006943 Walker B; other site 398579006944 ABC transporter; Region: ABC_tran_2; pfam12848 398579006945 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398579006946 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 398579006947 trimer interface [polypeptide binding]; other site 398579006948 active site 398579006949 substrate binding site [chemical binding]; other site 398579006950 CoA binding site [chemical binding]; other site 398579006951 Phospholipase A1; Region: PLA1; pfam02253 398579006952 dimerization interface [polypeptide binding]; other site 398579006953 substrate binding site [chemical binding]; other site 398579006954 active site 398579006955 calcium binding site [ion binding]; other site 398579006956 excinuclease ABC subunit B; Provisional; Region: PRK05298 398579006957 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 398579006958 ATP binding site [chemical binding]; other site 398579006959 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 398579006960 nucleotide binding region [chemical binding]; other site 398579006961 ATP-binding site [chemical binding]; other site 398579006962 Ultra-violet resistance protein B; Region: UvrB; pfam12344 398579006963 Part of AAA domain; Region: AAA_19; pfam13245 398579006964 Family description; Region: UvrD_C_2; pfam13538 398579006965 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 398579006966 Domain of unknown function DUF20; Region: UPF0118; pfam01594 398579006967 Eukaryotic Glutathione Synthetase (eu-GS); catalyses the production of glutathione from gamma-glutamylcysteine and glycine in an ATP-dependent manner. Belongs to the ATP-grasp superfamily; Region: eu-GS; cl00170 398579006968 glutathione (GSH) binding pocket [chemical binding]; other site 398579006969 active site residues [active] 398579006970 ATP binding pocket [chemical binding]; other site 398579006971 magnesium binding site [ion binding]; other site 398579006972 glycine rich loop; other site 398579006973 alanine rich loop; other site 398579006974 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 398579006975 active site 398579006976 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 398579006977 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 398579006978 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 398579006979 Histidine kinase; Region: HisKA_3; pfam07730 398579006980 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579006981 ATP binding site [chemical binding]; other site 398579006982 Mg2+ binding site [ion binding]; other site 398579006983 G-X-G motif; other site 398579006984 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398579006985 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579006986 active site 398579006987 phosphorylation site [posttranslational modification] 398579006988 intermolecular recognition site; other site 398579006989 dimerization interface [polypeptide binding]; other site 398579006990 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 398579006991 DNA binding residues [nucleotide binding] 398579006992 dimerization interface [polypeptide binding]; other site 398579006993 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 398579006994 active site 398579006995 catalytic residues [active] 398579006996 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 398579006997 PA/protease or protease-like domain interface [polypeptide binding]; other site 398579006998 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 398579006999 catalytic residues [active] 398579007000 DNA phosphorothioation-associated putative methyltransferase; Region: dnd_rel_methyl; TIGR04096 398579007001 HNH endonuclease; Region: HNH_4; pfam13395 398579007002 DNA-sulfur modification-associated; Region: DndB; pfam14072 398579007003 DGQHR domain; Region: DGQHR; TIGR03187 398579007004 hypothetical protein; Provisional; Region: PRK06850 398579007005 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 398579007006 Active Sites [active] 398579007007 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 398579007008 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398579007009 Walker A/P-loop; other site 398579007010 ATP binding site [chemical binding]; other site 398579007011 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398579007012 ABC transporter signature motif; other site 398579007013 Walker B; other site 398579007014 D-loop; other site 398579007015 H-loop/switch region; other site 398579007016 Domain of unknown function (DUF1832); Region: DUF1832; pfam08870 398579007017 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 398579007018 DNA binding residues [nucleotide binding] 398579007019 endonuclease subunit; Provisional; Region: 46; PHA02562 398579007020 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 398579007021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398579007022 AAA domain; Region: AAA_23; pfam13476 398579007023 Walker A/P-loop; other site 398579007024 ATP binding site [chemical binding]; other site 398579007025 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_a; cd09179 398579007026 putative active site [active] 398579007027 catalytic site [active] 398579007028 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 398579007029 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 398579007030 ATP binding site [chemical binding]; other site 398579007031 putative Mg++ binding site [ion binding]; other site 398579007032 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 398579007033 nucleotide binding region [chemical binding]; other site 398579007034 ATP-binding site [chemical binding]; other site 398579007035 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 398579007036 HNH endonuclease; Region: HNH_2; pfam13391 398579007037 DNA phosphorothioation-dependent restriction protein DptH; Region: dnd_assoc_2; TIGR03237 398579007038 AAA-like domain; Region: AAA_10; pfam12846 398579007039 DNA phosphorothioation-dependent restriction protein DptG; Region: dnd_assoc_1; TIGR03236 398579007040 DNA phosphorothioation-dependent restriction protein DptF; Region: dnd_assoc_3; TIGR03238 398579007041 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 398579007042 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 398579007043 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 398579007044 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 398579007045 substrate binding site [chemical binding]; other site 398579007046 ligand binding site [chemical binding]; other site 398579007047 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 398579007048 substrate binding site [chemical binding]; other site 398579007049 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 398579007050 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 398579007051 dimer interface [polypeptide binding]; other site 398579007052 active site 398579007053 citrylCoA binding site [chemical binding]; other site 398579007054 oxalacetate/citrate binding site [chemical binding]; other site 398579007055 coenzyme A binding site [chemical binding]; other site 398579007056 catalytic triad [active] 398579007057 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 398579007058 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 398579007059 tetramer interface [polypeptide binding]; other site 398579007060 active site 398579007061 Mg2+/Mn2+ binding site [ion binding]; other site 398579007062 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398579007063 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398579007064 DNA-binding site [nucleotide binding]; DNA binding site 398579007065 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 398579007066 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 398579007067 CoA binding domain; Region: CoA_binding_2; pfam13380 398579007068 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 398579007069 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 398579007070 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579007071 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579007072 metal binding site [ion binding]; metal-binding site 398579007073 active site 398579007074 I-site; other site 398579007075 putative metal dependent hydrolase; Provisional; Region: PRK11598 398579007076 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 398579007077 Sulfatase; Region: Sulfatase; pfam00884 398579007078 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398579007079 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 398579007080 putative Zn2+ binding site [ion binding]; other site 398579007081 putative DNA binding site [nucleotide binding]; other site 398579007082 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 398579007083 ecotin; Provisional; Region: PRK03719 398579007084 secondary substrate binding site; other site 398579007085 primary substrate binding site; other site 398579007086 inhibition loop; other site 398579007087 Integrase core domain; Region: rve; pfam00665 398579007088 Integrase core domain; Region: rve_3; pfam13683 398579007089 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 398579007090 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 398579007091 active site 398579007092 intersubunit interface [polypeptide binding]; other site 398579007093 catalytic residue [active] 398579007094 phosphogluconate dehydratase; Validated; Region: PRK09054 398579007095 6-phosphogluconate dehydratase; Region: edd; TIGR01196 398579007096 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 398579007097 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 398579007098 putative active site [active] 398579007099 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 398579007100 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 398579007101 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 398579007102 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 398579007103 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 398579007104 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 398579007105 putative active site [active] 398579007106 pyruvate kinase; Provisional; Region: PRK05826 398579007107 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 398579007108 domain interfaces; other site 398579007109 active site 398579007110 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 398579007111 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398579007112 active site 398579007113 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 398579007114 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398579007115 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398579007116 Peptidase family M2 Angiotensin converting enzyme (ACE); Region: M2_ACE; cd06461 398579007117 active site 398579007118 Zn binding site [ion binding]; other site 398579007119 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 398579007120 Smr domain; Region: Smr; pfam01713 398579007121 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 398579007122 SnoaL-like domain; Region: SnoaL_3; pfam13474 398579007123 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 398579007124 SEC-C motif; Region: SEC-C; pfam02810 398579007125 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 398579007126 PAS domain; Region: PAS_9; pfam13426 398579007127 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579007128 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579007129 metal binding site [ion binding]; metal-binding site 398579007130 active site 398579007131 I-site; other site 398579007132 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 398579007133 Protein of unknown function (DUF406); Region: DUF406; pfam04175 398579007134 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 398579007135 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 398579007136 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 398579007137 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398579007138 catalytic residue [active] 398579007139 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 398579007140 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 398579007141 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 398579007142 Ligand Binding Site [chemical binding]; other site 398579007143 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 398579007144 excinuclease ABC subunit B; Provisional; Region: PRK05298 398579007145 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 398579007146 ATP binding site [chemical binding]; other site 398579007147 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 398579007148 nucleotide binding region [chemical binding]; other site 398579007149 ATP-binding site [chemical binding]; other site 398579007150 Ultra-violet resistance protein B; Region: UvrB; pfam12344 398579007151 UvrB/uvrC motif; Region: UVR; pfam02151 398579007152 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579007153 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579007154 metal binding site [ion binding]; metal-binding site 398579007155 active site 398579007156 I-site; other site 398579007157 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 398579007158 electron transport complex protein RsxA; Provisional; Region: PRK05151 398579007159 electron transport complex protein RnfB; Provisional; Region: PRK05113 398579007160 Putative Fe-S cluster; Region: FeS; pfam04060 398579007161 4Fe-4S binding domain; Region: Fer4; pfam00037 398579007162 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 398579007163 SLBB domain; Region: SLBB; pfam10531 398579007164 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 398579007165 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 398579007166 electron transport complex protein RnfG; Validated; Region: PRK01908 398579007167 electron transport complex RsxE subunit; Provisional; Region: PRK12405 398579007168 endonuclease III; Provisional; Region: PRK10702 398579007169 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 398579007170 minor groove reading motif; other site 398579007171 helix-hairpin-helix signature motif; other site 398579007172 substrate binding pocket [chemical binding]; other site 398579007173 active site 398579007174 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 398579007175 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398579007176 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 398579007177 dimer interface [polypeptide binding]; other site 398579007178 active site 398579007179 metal binding site [ion binding]; metal-binding site 398579007180 glutathione binding site [chemical binding]; other site 398579007181 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 398579007182 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 398579007183 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 398579007184 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 398579007185 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 398579007186 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 398579007187 Walker A motif; other site 398579007188 ATP binding site [chemical binding]; other site 398579007189 Walker B motif; other site 398579007190 arginine finger; other site 398579007191 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 398579007192 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 398579007193 RuvA N terminal domain; Region: RuvA_N; pfam01330 398579007194 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 398579007195 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 398579007196 active site 398579007197 putative DNA-binding cleft [nucleotide binding]; other site 398579007198 dimer interface [polypeptide binding]; other site 398579007199 hypothetical protein; Validated; Region: PRK00110 398579007200 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 398579007201 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 398579007202 dimer interface [polypeptide binding]; other site 398579007203 anticodon binding site; other site 398579007204 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 398579007205 homodimer interface [polypeptide binding]; other site 398579007206 motif 1; other site 398579007207 active site 398579007208 motif 2; other site 398579007209 GAD domain; Region: GAD; pfam02938 398579007210 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 398579007211 active site 398579007212 motif 3; other site 398579007213 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398579007214 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 398579007215 substrate binding pocket [chemical binding]; other site 398579007216 membrane-bound complex binding site; other site 398579007217 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398579007218 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 398579007219 substrate binding pocket [chemical binding]; other site 398579007220 membrane-bound complex binding site; other site 398579007221 hinge residues; other site 398579007222 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 398579007223 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398579007224 substrate binding pocket [chemical binding]; other site 398579007225 membrane-bound complex binding site; other site 398579007226 hinge residues; other site 398579007227 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579007228 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579007229 metal binding site [ion binding]; metal-binding site 398579007230 active site 398579007231 I-site; other site 398579007232 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 398579007233 S-adenosylmethionine binding site [chemical binding]; other site 398579007234 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 398579007235 Methyltransferase domain; Region: Methyltransf_31; pfam13847 398579007236 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 398579007237 S-adenosylmethionine binding site [chemical binding]; other site 398579007238 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 398579007239 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 398579007240 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 398579007241 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 398579007242 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 398579007243 Domain of unknown function (DUF3541); Region: DUF3541; pfam12060 398579007244 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 398579007245 dimer interface [polypeptide binding]; other site 398579007246 phosphorylation site [posttranslational modification] 398579007247 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579007248 ATP binding site [chemical binding]; other site 398579007249 Mg2+ binding site [ion binding]; other site 398579007250 G-X-G motif; other site 398579007251 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398579007252 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579007253 active site 398579007254 phosphorylation site [posttranslational modification] 398579007255 intermolecular recognition site; other site 398579007256 dimerization interface [polypeptide binding]; other site 398579007257 Response regulator receiver domain; Region: Response_reg; pfam00072 398579007258 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579007259 active site 398579007260 phosphorylation site [posttranslational modification] 398579007261 intermolecular recognition site; other site 398579007262 dimerization interface [polypeptide binding]; other site 398579007263 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 398579007264 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 398579007265 FeS/SAM binding site; other site 398579007266 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 398579007267 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 398579007268 ThiS interaction site; other site 398579007269 putative active site [active] 398579007270 tetramer interface [polypeptide binding]; other site 398579007271 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 398579007272 thiS-thiF/thiG interaction site; other site 398579007273 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 398579007274 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 398579007275 ATP binding site [chemical binding]; other site 398579007276 substrate interface [chemical binding]; other site 398579007277 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 398579007278 dimer interface [polypeptide binding]; other site 398579007279 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 398579007280 substrate binding site [chemical binding]; other site 398579007281 ATP binding site [chemical binding]; other site 398579007282 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 398579007283 thiamine phosphate binding site [chemical binding]; other site 398579007284 active site 398579007285 pyrophosphate binding site [ion binding]; other site 398579007286 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 398579007287 ThiC-associated domain; Region: ThiC-associated; pfam13667 398579007288 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 398579007289 Haemolysin-III related; Region: HlyIII; cl03831 398579007290 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 398579007291 DTW domain; Region: DTW; cl01221 398579007292 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 398579007293 active site 398579007294 catalytic residues [active] 398579007295 metal binding site [ion binding]; metal-binding site 398579007296 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 398579007297 putative substrate translocation pore; other site 398579007298 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 398579007299 active site 398579007300 DNA binding site [nucleotide binding] 398579007301 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 398579007302 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 398579007303 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 398579007304 putative active site [active] 398579007305 putative dimer interface [polypeptide binding]; other site 398579007306 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 398579007307 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398579007308 active site 398579007309 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 398579007310 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 398579007311 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 398579007312 FeS/SAM binding site; other site 398579007313 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 398579007314 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 398579007315 CHASE3 domain; Region: CHASE3; pfam05227 398579007316 CHASE3 domain; Region: CHASE3; pfam05227 398579007317 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 398579007318 HAMP domain; Region: HAMP; pfam00672 398579007319 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398579007320 dimer interface [polypeptide binding]; other site 398579007321 putative CheW interface [polypeptide binding]; other site 398579007322 Predicted periplasmic protein [Function unknown]; Region: COG3904 398579007323 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 398579007324 TrkA-N domain; Region: TrkA_N; pfam02254 398579007325 TIGR03503 family protein; Region: TIGR03503 398579007326 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 398579007327 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 398579007328 active site 398579007329 catalytic site [active] 398579007330 substrate binding site [chemical binding]; other site 398579007331 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 398579007332 RNA/DNA hybrid binding site [nucleotide binding]; other site 398579007333 active site 398579007334 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 398579007335 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579007336 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 398579007337 putative dimerization interface [polypeptide binding]; other site 398579007338 Methyltransferase domain; Region: Methyltransf_11; pfam08241 398579007339 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 398579007340 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 398579007341 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398579007342 catalytic residue [active] 398579007343 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398579007344 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398579007345 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 398579007346 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398579007347 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 398579007348 AsmA family; Region: AsmA; pfam05170 398579007349 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 398579007350 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 398579007351 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 398579007352 TMAO/DMSO reductase; Reviewed; Region: PRK05363 398579007353 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 398579007354 Moco binding site; other site 398579007355 metal coordination site [ion binding]; other site 398579007356 RmuC family; Region: RmuC; pfam02646 398579007357 lytic murein transglycosylase; Provisional; Region: PRK11619 398579007358 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 398579007359 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398579007360 catalytic residue [active] 398579007361 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 398579007362 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 398579007363 Walker A motif; other site 398579007364 ATP binding site [chemical binding]; other site 398579007365 Walker B motif; other site 398579007366 arginine finger; other site 398579007367 Protein of unknown function DUF58; Region: DUF58; pfam01882 398579007368 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 398579007369 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 398579007370 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 398579007371 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 398579007372 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 398579007373 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 398579007374 Part of AAA domain; Region: AAA_19; pfam13245 398579007375 Family description; Region: UvrD_C_2; pfam13538 398579007376 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 398579007377 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 398579007378 AAA domain; Region: AAA_30; pfam13604 398579007379 Family description; Region: UvrD_C_2; pfam13538 398579007380 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 398579007381 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 398579007382 ATP-grasp domain; Region: ATP-grasp_4; cl17255 398579007383 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 398579007384 Integrase core domain; Region: rve; pfam00665 398579007385 Integrase core domain; Region: rve_3; pfam13683 398579007386 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 398579007387 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 398579007388 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 398579007389 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 398579007390 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 398579007391 [4Fe-4S] binding site [ion binding]; other site 398579007392 molybdopterin cofactor binding site; other site 398579007393 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 398579007394 molybdopterin cofactor binding site; other site 398579007395 NapD protein; Region: NapD; pfam03927 398579007396 Periplasmic nitrate reductase protein NapE; Region: NapE; cl01848 398579007397 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 398579007398 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 398579007399 ATP binding site [chemical binding]; other site 398579007400 putative Mg++ binding site [ion binding]; other site 398579007401 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 398579007402 nucleotide binding region [chemical binding]; other site 398579007403 ATP-binding site [chemical binding]; other site 398579007404 Helicase associated domain (HA2); Region: HA2; pfam04408 398579007405 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 398579007406 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 398579007407 FOG: CBS domain [General function prediction only]; Region: COG0517 398579007408 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_16; cd04629 398579007409 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398579007410 active site 398579007411 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 398579007412 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 398579007413 catalytic nucleophile [active] 398579007414 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 398579007415 Surface antigen; Region: Bac_surface_Ag; pfam01103 398579007416 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 398579007417 Family of unknown function (DUF490); Region: DUF490; pfam04357 398579007418 fatty acid metabolism regulator; Provisional; Region: PRK04984 398579007419 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398579007420 DNA-binding site [nucleotide binding]; DNA binding site 398579007421 FadR C-terminal domain; Region: FadR_C; pfam07840 398579007422 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 398579007423 transmembrane helices; other site 398579007424 disulfide bond formation protein B; Provisional; Region: PRK01749 398579007425 hypothetical protein; Provisional; Region: PRK05170 398579007426 Transglycosylase SLT domain; Region: SLT_2; pfam13406 398579007427 murein hydrolase B; Provisional; Region: PRK10760; cl17906 398579007428 YcgL domain; Region: YcgL; pfam05166 398579007429 septum formation inhibitor; Reviewed; Region: minC; PRK04804 398579007430 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 398579007431 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 398579007432 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 398579007433 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 398579007434 Switch I; other site 398579007435 Switch II; other site 398579007436 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 398579007437 ribonuclease D; Provisional; Region: PRK10829 398579007438 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 398579007439 catalytic site [active] 398579007440 putative active site [active] 398579007441 putative substrate binding site [chemical binding]; other site 398579007442 HRDC domain; Region: HRDC; pfam00570 398579007443 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 398579007444 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 398579007445 acyl-activating enzyme (AAE) consensus motif; other site 398579007446 putative AMP binding site [chemical binding]; other site 398579007447 putative active site [active] 398579007448 putative CoA binding site [chemical binding]; other site 398579007449 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398579007450 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398579007451 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 398579007452 catalytic site [active] 398579007453 Predicted methyltransferase [General function prediction only]; Region: COG4798 398579007454 Methyltransferase domain; Region: Methyltransf_23; pfam13489 398579007455 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 398579007456 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 398579007457 Glycoprotease family; Region: Peptidase_M22; pfam00814 398579007458 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 398579007459 DEAD/DEAH box helicase; Region: DEAD; pfam00270 398579007460 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 398579007461 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 398579007462 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 398579007463 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 398579007464 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 398579007465 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 398579007466 NAD binding site [chemical binding]; other site 398579007467 dimerization interface [polypeptide binding]; other site 398579007468 product binding site; other site 398579007469 substrate binding site [chemical binding]; other site 398579007470 zinc binding site [ion binding]; other site 398579007471 catalytic residues [active] 398579007472 histidinol-phosphate aminotransferase; Provisional; Region: PRK04635 398579007473 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 398579007474 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579007475 homodimer interface [polypeptide binding]; other site 398579007476 catalytic residue [active] 398579007477 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 398579007478 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 398579007479 active site 398579007480 motif I; other site 398579007481 motif II; other site 398579007482 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 398579007483 putative active site pocket [active] 398579007484 4-fold oligomerization interface [polypeptide binding]; other site 398579007485 metal binding residues [ion binding]; metal-binding site 398579007486 3-fold/trimer interface [polypeptide binding]; other site 398579007487 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 398579007488 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 398579007489 putative active site [active] 398579007490 oxyanion strand; other site 398579007491 catalytic triad [active] 398579007492 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 398579007493 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 398579007494 catalytic residues [active] 398579007495 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 398579007496 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 398579007497 substrate binding site [chemical binding]; other site 398579007498 glutamase interaction surface [polypeptide binding]; other site 398579007499 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 398579007500 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 398579007501 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 398579007502 metal binding site [ion binding]; metal-binding site 398579007503 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 398579007504 ATP binding site [chemical binding]; other site 398579007505 active site 398579007506 substrate binding site [chemical binding]; other site 398579007507 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 398579007508 Integrase core domain; Region: rve; pfam00665 398579007509 Integrase core domain; Region: rve_3; pfam13683 398579007510 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 398579007511 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 398579007512 putative acyl-acceptor binding pocket; other site 398579007513 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 398579007514 IHF dimer interface [polypeptide binding]; other site 398579007515 IHF - DNA interface [nucleotide binding]; other site 398579007516 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 398579007517 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 398579007518 putative tRNA-binding site [nucleotide binding]; other site 398579007519 B3/4 domain; Region: B3_4; pfam03483 398579007520 tRNA synthetase B5 domain; Region: B5; smart00874 398579007521 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 398579007522 dimer interface [polypeptide binding]; other site 398579007523 motif 1; other site 398579007524 motif 3; other site 398579007525 motif 2; other site 398579007526 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 398579007527 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 398579007528 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 398579007529 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 398579007530 dimer interface [polypeptide binding]; other site 398579007531 motif 1; other site 398579007532 active site 398579007533 motif 2; other site 398579007534 motif 3; other site 398579007535 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398579007536 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398579007537 dimer interface [polypeptide binding]; other site 398579007538 putative CheW interface [polypeptide binding]; other site 398579007539 Cache domain; Region: Cache_1; pfam02743 398579007540 PAS domain; Region: PAS; smart00091 398579007541 PAS domain; Region: PAS_9; pfam13426 398579007542 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398579007543 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 398579007544 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 398579007545 Protein of unknown function (DUF3802); Region: DUF3802; pfam12290 398579007546 YceI-like domain; Region: YceI; pfam04264 398579007547 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 398579007548 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 398579007549 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 398579007550 agmatinase; Region: agmatinase; TIGR01230 398579007551 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 398579007552 oligomer interface [polypeptide binding]; other site 398579007553 putative active site [active] 398579007554 Mn binding site [ion binding]; other site 398579007555 Adenosylmethionine decarboxylase; Region: SAM_decarbox; cl03253 398579007556 arginine decarboxylase; Provisional; Region: PRK05354 398579007557 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 398579007558 dimer interface [polypeptide binding]; other site 398579007559 active site 398579007560 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398579007561 catalytic residues [active] 398579007562 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 398579007563 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 398579007564 S1 domain; Region: S1_2; pfam13509 398579007565 S1 domain; Region: S1_2; pfam13509 398579007566 hypothetical protein; Provisional; Region: PRK11239 398579007567 Protein of unknown function, DUF480; Region: DUF480; pfam04337 398579007568 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 398579007569 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398579007570 Walker A/P-loop; other site 398579007571 ATP binding site [chemical binding]; other site 398579007572 Q-loop/lid; other site 398579007573 ABC transporter signature motif; other site 398579007574 Walker B; other site 398579007575 D-loop; other site 398579007576 H-loop/switch region; other site 398579007577 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 398579007578 DNA-binding site [nucleotide binding]; DNA binding site 398579007579 RNA-binding motif; other site 398579007580 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 398579007581 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 398579007582 S-adenosylmethionine binding site [chemical binding]; other site 398579007583 exonuclease I; Provisional; Region: sbcB; PRK11779 398579007584 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 398579007585 active site 398579007586 catalytic site [active] 398579007587 substrate binding site [chemical binding]; other site 398579007588 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 398579007589 cytidine deaminase; Provisional; Region: PRK09027 398579007590 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 398579007591 active site 398579007592 catalytic motif [active] 398579007593 Zn binding site [ion binding]; other site 398579007594 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 398579007595 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 398579007596 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 398579007597 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 398579007598 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 398579007599 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 398579007600 dimer interface [polypeptide binding]; other site 398579007601 active site 398579007602 acyl carrier protein; Provisional; Region: acpP; PRK00982 398579007603 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398579007604 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 398579007605 NAD(P) binding site [chemical binding]; other site 398579007606 homotetramer interface [polypeptide binding]; other site 398579007607 homodimer interface [polypeptide binding]; other site 398579007608 active site 398579007609 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 398579007610 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 398579007611 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 398579007612 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 398579007613 dimer interface [polypeptide binding]; other site 398579007614 active site 398579007615 CoA binding pocket [chemical binding]; other site 398579007616 putative phosphate acyltransferase; Provisional; Region: PRK05331 398579007617 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 398579007618 hypothetical protein; Provisional; Region: PRK11193 398579007619 Maf-like protein; Region: Maf; pfam02545 398579007620 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 398579007621 active site 398579007622 dimer interface [polypeptide binding]; other site 398579007623 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 398579007624 PAS fold; Region: PAS_4; pfam08448 398579007625 putative active site [active] 398579007626 heme pocket [chemical binding]; other site 398579007627 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579007628 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579007629 metal binding site [ion binding]; metal-binding site 398579007630 active site 398579007631 I-site; other site 398579007632 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 398579007633 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 398579007634 motif II; other site 398579007635 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 398579007636 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 398579007637 RNA binding surface [nucleotide binding]; other site 398579007638 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 398579007639 active site 398579007640 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 398579007641 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 398579007642 homodimer interface [polypeptide binding]; other site 398579007643 oligonucleotide binding site [chemical binding]; other site 398579007644 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 398579007645 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 398579007646 Sulfate transporter family; Region: Sulfate_transp; pfam00916 398579007647 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 398579007648 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 398579007649 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 398579007650 methionine sulfoxide reductase A; Provisional; Region: PRK14054 398579007651 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 398579007652 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 398579007653 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 398579007654 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 398579007655 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 398579007656 GTP/Mg2+ binding site [chemical binding]; other site 398579007657 G4 box; other site 398579007658 G5 box; other site 398579007659 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 398579007660 G1 box; other site 398579007661 G1 box; other site 398579007662 GTP/Mg2+ binding site [chemical binding]; other site 398579007663 Switch I region; other site 398579007664 G2 box; other site 398579007665 G2 box; other site 398579007666 G3 box; other site 398579007667 G3 box; other site 398579007668 Switch II region; other site 398579007669 Switch II region; other site 398579007670 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 398579007671 Low molecular weight phosphatase family; Region: LMWPc; cd00115 398579007672 active site 398579007673 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 398579007674 dimer interface [polypeptide binding]; other site 398579007675 FMN binding site [chemical binding]; other site 398579007676 DNA ligase; Provisional; Region: PRK09125 398579007677 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 398579007678 DNA binding site [nucleotide binding] 398579007679 active site 398579007680 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 398579007681 DNA binding site [nucleotide binding] 398579007682 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 398579007683 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579007684 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579007685 metal binding site [ion binding]; metal-binding site 398579007686 active site 398579007687 I-site; other site 398579007688 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 398579007689 active site 398579007690 catalytic site [active] 398579007691 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 398579007692 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 398579007693 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 398579007694 metal ion-dependent adhesion site (MIDAS); other site 398579007695 proteobacterial sortase system OmpA family protein; Region: pdsO; TIGR03789 398579007696 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398579007697 ligand binding site [chemical binding]; other site 398579007698 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 398579007699 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579007700 active site 398579007701 phosphorylation site [posttranslational modification] 398579007702 intermolecular recognition site; other site 398579007703 dimerization interface [polypeptide binding]; other site 398579007704 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 398579007705 DNA binding site [nucleotide binding] 398579007706 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 398579007707 DOMON-like type 9 carbohydrate binding module at the N-terminus of bacterial sensor histidine kinases; Region: CBM9_like_HisKa; cd09622 398579007708 putative ligand binding site [chemical binding]; other site 398579007709 HAMP domain; Region: HAMP; pfam00672 398579007710 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 398579007711 dimer interface [polypeptide binding]; other site 398579007712 phosphorylation site [posttranslational modification] 398579007713 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579007714 ATP binding site [chemical binding]; other site 398579007715 Mg2+ binding site [ion binding]; other site 398579007716 G-X-G motif; other site 398579007717 cystathionine beta-lyase; Provisional; Region: PRK09028 398579007718 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 398579007719 homodimer interface [polypeptide binding]; other site 398579007720 substrate-cofactor binding pocket; other site 398579007721 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579007722 catalytic residue [active] 398579007723 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 398579007724 CreA protein; Region: CreA; pfam05981 398579007725 putative chaperone; Provisional; Region: PRK11678 398579007726 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 398579007727 nucleotide binding site [chemical binding]; other site 398579007728 putative NEF/HSP70 interaction site [polypeptide binding]; other site 398579007729 SBD interface [polypeptide binding]; other site 398579007730 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 398579007731 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 398579007732 active site residue [active] 398579007733 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398579007734 GST_N family, Omega-like subfamily; composed of uncharacterized proteins with similarity to class Omega GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_Omega_like; cd03060 398579007735 putative GSH binding site (G-site) [chemical binding]; other site 398579007736 active site cysteine [active] 398579007737 putative C-terminal domain interface [polypeptide binding]; other site 398579007738 putative dimer interface [polypeptide binding]; other site 398579007739 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 398579007740 putative N-terminal domain interface [polypeptide binding]; other site 398579007741 putative dimer interface [polypeptide binding]; other site 398579007742 putative substrate binding pocket (H-site) [chemical binding]; other site 398579007743 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398579007744 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 398579007745 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398579007746 DNA-binding site [nucleotide binding]; DNA binding site 398579007747 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 398579007748 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579007749 homodimer interface [polypeptide binding]; other site 398579007750 catalytic residue [active] 398579007751 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 398579007752 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 398579007753 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 398579007754 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 398579007755 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 398579007756 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 398579007757 rRNA binding site [nucleotide binding]; other site 398579007758 predicted 30S ribosome binding site; other site 398579007759 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 398579007760 Clp amino terminal domain; Region: Clp_N; pfam02861 398579007761 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 398579007762 Walker A motif; other site 398579007763 ATP binding site [chemical binding]; other site 398579007764 Walker B motif; other site 398579007765 arginine finger; other site 398579007766 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 398579007767 Walker A motif; other site 398579007768 ATP binding site [chemical binding]; other site 398579007769 Walker B motif; other site 398579007770 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 398579007771 Uncharacterized conserved protein [Function unknown]; Region: COG2127 398579007772 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 398579007773 DNA-binding site [nucleotide binding]; DNA binding site 398579007774 RNA-binding motif; other site 398579007775 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 398579007776 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 398579007777 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 398579007778 pseudouridine synthase; Region: TIGR00093 398579007779 probable active site [active] 398579007780 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 398579007781 nudix motif; other site 398579007782 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 398579007783 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 398579007784 putative lysogenization regulator; Reviewed; Region: PRK00218 398579007785 adenylosuccinate lyase; Provisional; Region: PRK09285 398579007786 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 398579007787 tetramer interface [polypeptide binding]; other site 398579007788 active site 398579007789 Cupin superfamily protein; Region: Cupin_4; pfam08007 398579007790 Cupin domain; Region: Cupin_2; cl17218 398579007791 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 398579007792 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 398579007793 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 398579007794 NAD binding site [chemical binding]; other site 398579007795 Phe binding site; other site 398579007796 biofilm formation regulator HmsP; Provisional; Region: PRK11829 398579007797 Periplasmic lysozyme inhibitor, I-type (PliI) and similar proteins; Region: PliI_like; cd09632 398579007798 dimer interface [polypeptide binding]; other site 398579007799 putative inhibitory loop; other site 398579007800 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398579007801 MarR family; Region: MarR; pfam01047 398579007802 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 398579007803 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398579007804 FAD binding domain; Region: FAD_binding_4; pfam01565 398579007805 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 398579007806 phosphoenolpyruvate synthase; Validated; Region: PRK06464 398579007807 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 398579007808 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 398579007809 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 398579007810 PEP synthetase regulatory protein; Provisional; Region: PRK05339 398579007811 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 398579007812 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 398579007813 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 398579007814 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 398579007815 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 398579007816 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398579007817 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579007818 active site 398579007819 phosphorylation site [posttranslational modification] 398579007820 intermolecular recognition site; other site 398579007821 dimerization interface [polypeptide binding]; other site 398579007822 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 398579007823 DNA binding residues [nucleotide binding] 398579007824 dimerization interface [polypeptide binding]; other site 398579007825 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 398579007826 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398579007827 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 398579007828 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 398579007829 Na binding site [ion binding]; other site 398579007830 PAS domain; Region: PAS; smart00091 398579007831 PAS fold; Region: PAS_7; pfam12860 398579007832 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398579007833 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 398579007834 dimer interface [polypeptide binding]; other site 398579007835 phosphorylation site [posttranslational modification] 398579007836 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579007837 ATP binding site [chemical binding]; other site 398579007838 Mg2+ binding site [ion binding]; other site 398579007839 G-X-G motif; other site 398579007840 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398579007841 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579007842 active site 398579007843 phosphorylation site [posttranslational modification] 398579007844 intermolecular recognition site; other site 398579007845 dimerization interface [polypeptide binding]; other site 398579007846 acetyl-CoA synthetase; Provisional; Region: PRK00174 398579007847 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 398579007848 active site 398579007849 CoA binding site [chemical binding]; other site 398579007850 acyl-activating enzyme (AAE) consensus motif; other site 398579007851 AMP binding site [chemical binding]; other site 398579007852 acetate binding site [chemical binding]; other site 398579007853 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 398579007854 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 398579007855 ATP binding site [chemical binding]; other site 398579007856 putative Mg++ binding site [ion binding]; other site 398579007857 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 398579007858 nucleotide binding region [chemical binding]; other site 398579007859 ATP-binding site [chemical binding]; other site 398579007860 Double zinc ribbon; Region: DZR; pfam12773 398579007861 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 398579007862 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 398579007863 GSH binding site [chemical binding]; other site 398579007864 catalytic residues [active] 398579007865 tol-pal system protein YbgF; Provisional; Region: PRK10803 398579007866 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 398579007867 binding surface 398579007868 TPR motif; other site 398579007869 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 398579007870 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398579007871 ligand binding site [chemical binding]; other site 398579007872 translocation protein TolB; Provisional; Region: tolB; PRK04792 398579007873 TolB amino-terminal domain; Region: TolB_N; pfam04052 398579007874 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 398579007875 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 398579007876 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 398579007877 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 398579007878 TolA protein; Region: tolA_full; TIGR02794 398579007879 TolA C-terminal; Region: TolA; pfam06519 398579007880 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 398579007881 TolR protein; Region: tolR; TIGR02801 398579007882 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 398579007883 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 398579007884 active site 398579007885 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 398579007886 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398579007887 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398579007888 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398579007889 ligand binding site [chemical binding]; other site 398579007890 ribonuclease T; Provisional; Region: PRK05168 398579007891 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 398579007892 active site 398579007893 catalytic site [active] 398579007894 substrate binding site [chemical binding]; other site 398579007895 Integrase core domain; Region: rve; pfam00665 398579007896 Integrase core domain; Region: rve_3; pfam13683 398579007897 peroxidase; Provisional; Region: PRK15000 398579007898 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 398579007899 dimer interface [polypeptide binding]; other site 398579007900 decamer (pentamer of dimers) interface [polypeptide binding]; other site 398579007901 catalytic triad [active] 398579007902 peroxidatic and resolving cysteines [active] 398579007903 Predicted permease [General function prediction only]; Region: COG2056 398579007904 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 398579007905 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398579007906 active site 398579007907 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 398579007908 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 398579007909 dimerization interface [polypeptide binding]; other site 398579007910 putative ATP binding site [chemical binding]; other site 398579007911 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 398579007912 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 398579007913 active site 398579007914 substrate binding site [chemical binding]; other site 398579007915 cosubstrate binding site; other site 398579007916 catalytic site [active] 398579007917 Uncharacterized conserved protein [Function unknown]; Region: COG5361 398579007918 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 398579007919 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 398579007920 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398579007921 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 398579007922 TPR motif; other site 398579007923 binding surface 398579007924 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398579007925 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579007926 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579007927 metal binding site [ion binding]; metal-binding site 398579007928 active site 398579007929 I-site; other site 398579007930 UMP phosphatase; Provisional; Region: PRK10444 398579007931 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 398579007932 active site 398579007933 motif I; other site 398579007934 motif II; other site 398579007935 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 398579007936 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 398579007937 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 398579007938 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 398579007939 PA/protease or protease-like domain interface [polypeptide binding]; other site 398579007940 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 398579007941 metal binding site [ion binding]; metal-binding site 398579007942 asparagine synthetase B; Provisional; Region: asnB; PRK09431 398579007943 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 398579007944 active site 398579007945 dimer interface [polypeptide binding]; other site 398579007946 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 398579007947 Ligand Binding Site [chemical binding]; other site 398579007948 Molecular Tunnel; other site 398579007949 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 398579007950 YfcL protein; Region: YfcL; pfam08891 398579007951 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 398579007952 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 398579007953 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 398579007954 putative substrate translocation pore; other site 398579007955 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 398579007956 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 398579007957 Tetramer interface [polypeptide binding]; other site 398579007958 active site 398579007959 FMN-binding site [chemical binding]; other site 398579007960 HemK family putative methylases; Region: hemK_fam; TIGR00536 398579007961 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 398579007962 S-adenosylmethionine binding site [chemical binding]; other site 398579007963 hypothetical protein; Provisional; Region: PRK04946 398579007964 Smr domain; Region: Smr; pfam01713 398579007965 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 398579007966 catalytic core [active] 398579007967 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 398579007968 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 398579007969 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 398579007970 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 398579007971 Two component regulator propeller; Region: Reg_prop; pfam07494 398579007972 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 398579007973 PAS fold; Region: PAS_3; pfam08447 398579007974 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 398579007975 PAS domain; Region: PAS_9; pfam13426 398579007976 putative active site [active] 398579007977 heme pocket [chemical binding]; other site 398579007978 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579007979 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579007980 metal binding site [ion binding]; metal-binding site 398579007981 active site 398579007982 I-site; other site 398579007983 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 398579007984 The family 20 carbohydrate-binding module (CBM20), also known as the starch-binding domain, is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is...; Region: CBM20; cl15347 398579007985 starch-binding site 1 [chemical binding]; other site 398579007986 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 398579007987 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 398579007988 substrate binding site [chemical binding]; other site 398579007989 oxyanion hole (OAH) forming residues; other site 398579007990 trimer interface [polypeptide binding]; other site 398579007991 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 398579007992 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398579007993 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398579007994 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 398579007995 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 398579007996 dimer interface [polypeptide binding]; other site 398579007997 active site 398579007998 MoxR-like ATPases [General function prediction only]; Region: COG0714 398579007999 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 398579008000 Walker A motif; other site 398579008001 ATP binding site [chemical binding]; other site 398579008002 Walker B motif; other site 398579008003 arginine finger; other site 398579008004 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 398579008005 Protein of unknown function DUF58; Region: DUF58; pfam01882 398579008006 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 398579008007 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 398579008008 metal ion-dependent adhesion site (MIDAS); other site 398579008009 von Willebrand factor type A domain; Region: VWA_2; pfam13519 398579008010 metal ion-dependent adhesion site (MIDAS); other site 398579008011 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398579008012 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 398579008013 TPR motif; other site 398579008014 binding surface 398579008015 Oxygen tolerance; Region: BatD; pfam13584 398579008016 RNA polymerase sigma factor; Provisional; Region: PRK12517 398579008017 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398579008018 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 398579008019 DNA binding residues [nucleotide binding] 398579008020 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 398579008021 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 398579008022 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 398579008023 Na binding site [ion binding]; other site 398579008024 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 398579008025 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398579008026 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 398579008027 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398579008028 Protein export membrane protein; Region: SecD_SecF; cl14618 398579008029 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 398579008030 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 398579008031 active site residue [active] 398579008032 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 398579008033 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 398579008034 dimerization interface [polypeptide binding]; other site 398579008035 active site 398579008036 hypothetical protein; Provisional; Region: PRK11020 398579008037 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 398579008038 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 398579008039 FeS/SAM binding site; other site 398579008040 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 398579008041 ATP cone domain; Region: ATP-cone; pfam03477 398579008042 Class III ribonucleotide reductase; Region: RNR_III; cd01675 398579008043 effector binding site; other site 398579008044 active site 398579008045 Zn binding site [ion binding]; other site 398579008046 glycine loop; other site 398579008047 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398579008048 MarR family; Region: MarR; pfam01047 398579008049 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 398579008050 Prostaglandin dehydrogenases; Region: PGDH; cd05288 398579008051 NAD(P) binding site [chemical binding]; other site 398579008052 substrate binding site [chemical binding]; other site 398579008053 dimer interface [polypeptide binding]; other site 398579008054 hypothetical protein; Provisional; Region: PRK10279 398579008055 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 398579008056 active site 398579008057 nucleophile elbow; other site 398579008058 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 398579008059 DEAD-like helicases superfamily; Region: DEXDc; smart00487 398579008060 ATP binding site [chemical binding]; other site 398579008061 Mg++ binding site [ion binding]; other site 398579008062 motif III; other site 398579008063 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 398579008064 nucleotide binding region [chemical binding]; other site 398579008065 ATP-binding site [chemical binding]; other site 398579008066 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 398579008067 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 398579008068 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 398579008069 Putative transposase; Region: Y2_Tnp; pfam04986 398579008070 putative peptidase; Provisional; Region: PRK11649 398579008071 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 398579008072 Peptidase family M23; Region: Peptidase_M23; pfam01551 398579008073 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 398579008074 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 398579008075 Walker A/P-loop; other site 398579008076 ATP binding site [chemical binding]; other site 398579008077 Q-loop/lid; other site 398579008078 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 398579008079 ABC transporter signature motif; other site 398579008080 Walker B; other site 398579008081 D-loop; other site 398579008082 H-loop/switch region; other site 398579008083 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 398579008084 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 398579008085 active site 398579008086 metal binding site [ion binding]; metal-binding site 398579008087 DNA binding site [nucleotide binding] 398579008088 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 398579008089 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 398579008090 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 398579008091 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579008092 homodimer interface [polypeptide binding]; other site 398579008093 catalytic residue [active] 398579008094 Domain of unknown function (DUF4092); Region: DUF4092; pfam13322 398579008095 Peptidase M60-like family; Region: M60-like; pfam13402 398579008096 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 398579008097 hypothetical protein; Provisional; Region: PRK10621 398579008098 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 398579008099 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398579008100 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579008101 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 398579008102 dimerization interface [polypeptide binding]; other site 398579008103 Nuclease-related domain; Region: NERD; pfam08378 398579008104 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 398579008105 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398579008106 active site 398579008107 ATP binding site [chemical binding]; other site 398579008108 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 398579008109 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 398579008110 RNA binding surface [nucleotide binding]; other site 398579008111 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 398579008112 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398579008113 Coenzyme A binding pocket [chemical binding]; other site 398579008114 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 398579008115 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 398579008116 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579008117 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579008118 metal binding site [ion binding]; metal-binding site 398579008119 active site 398579008120 I-site; other site 398579008121 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 398579008122 TPR motif; other site 398579008123 binding surface 398579008124 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 398579008125 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 398579008126 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 398579008127 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 398579008128 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 398579008129 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 398579008130 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 398579008131 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 398579008132 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 398579008133 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 398579008134 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 398579008135 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398579008136 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 398579008137 trimer interface [polypeptide binding]; other site 398579008138 eyelet of channel; other site 398579008139 DNA polymerase II; Reviewed; Region: PRK05762 398579008140 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 398579008141 active site 398579008142 catalytic site [active] 398579008143 substrate binding site [chemical binding]; other site 398579008144 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 398579008145 active site 398579008146 metal-binding site 398579008147 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 398579008148 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 398579008149 hypothetical protein; Provisional; Region: PRK10621 398579008150 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 398579008151 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 398579008152 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 398579008153 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 398579008154 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 398579008155 putative active site [active] 398579008156 Zn binding site [ion binding]; other site 398579008157 Late competence development protein ComFB; Region: ComFB; pfam10719 398579008158 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 398579008159 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 398579008160 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 398579008161 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 398579008162 transmembrane helices; other site 398579008163 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 398579008164 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 398579008165 homodimer interface [polypeptide binding]; other site 398579008166 substrate-cofactor binding pocket; other site 398579008167 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579008168 catalytic residue [active] 398579008169 hypothetical protein; Provisional; Region: PRK05415 398579008170 Domain of unknown function (DUF697); Region: DUF697; pfam05128 398579008171 YcjX-like family, DUF463; Region: DUF463; pfam04317 398579008172 PspC domain; Region: PspC; cl00864 398579008173 phage shock protein C; Region: phageshock_pspC; TIGR02978 398579008174 phage shock protein B; Provisional; Region: pspB; PRK09458 398579008175 phage shock protein A; Region: phageshock_pspA; TIGR02977 398579008176 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 398579008177 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 398579008178 Walker A motif; other site 398579008179 ATP binding site [chemical binding]; other site 398579008180 Walker B motif; other site 398579008181 arginine finger; other site 398579008182 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398579008183 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 398579008184 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 398579008185 peptide binding site [polypeptide binding]; other site 398579008186 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 398579008187 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 398579008188 dimer interface [polypeptide binding]; other site 398579008189 conserved gate region; other site 398579008190 putative PBP binding loops; other site 398579008191 ABC-ATPase subunit interface; other site 398579008192 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 398579008193 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 398579008194 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 398579008195 dimer interface [polypeptide binding]; other site 398579008196 conserved gate region; other site 398579008197 putative PBP binding loops; other site 398579008198 ABC-ATPase subunit interface; other site 398579008199 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 398579008200 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398579008201 Walker A/P-loop; other site 398579008202 ATP binding site [chemical binding]; other site 398579008203 Q-loop/lid; other site 398579008204 ABC transporter signature motif; other site 398579008205 Walker B; other site 398579008206 D-loop; other site 398579008207 H-loop/switch region; other site 398579008208 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 398579008209 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 398579008210 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398579008211 Walker A/P-loop; other site 398579008212 ATP binding site [chemical binding]; other site 398579008213 Q-loop/lid; other site 398579008214 ABC transporter signature motif; other site 398579008215 Walker B; other site 398579008216 D-loop; other site 398579008217 H-loop/switch region; other site 398579008218 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398579008219 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 398579008220 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 398579008221 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 398579008222 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 398579008223 periplasmic folding chaperone; Provisional; Region: PRK10788 398579008224 SurA N-terminal domain; Region: SurA_N_3; cl07813 398579008225 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 398579008226 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 398579008227 IHF dimer interface [polypeptide binding]; other site 398579008228 IHF - DNA interface [nucleotide binding]; other site 398579008229 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 398579008230 Found in ATP-dependent protease La (LON); Region: LON; smart00464 398579008231 Found in ATP-dependent protease La (LON); Region: LON; smart00464 398579008232 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 398579008233 Walker A motif; other site 398579008234 ATP binding site [chemical binding]; other site 398579008235 Walker B motif; other site 398579008236 arginine finger; other site 398579008237 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 398579008238 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 398579008239 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 398579008240 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 398579008241 Walker A motif; other site 398579008242 ATP binding site [chemical binding]; other site 398579008243 Walker B motif; other site 398579008244 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 398579008245 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 398579008246 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 398579008247 oligomer interface [polypeptide binding]; other site 398579008248 active site residues [active] 398579008249 trigger factor; Provisional; Region: tig; PRK01490 398579008250 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 398579008251 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 398579008252 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 398579008253 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 398579008254 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 398579008255 homodimer interface [polypeptide binding]; other site 398579008256 NADP binding site [chemical binding]; other site 398579008257 substrate binding site [chemical binding]; other site 398579008258 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 398579008259 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 398579008260 active site 398579008261 HIGH motif; other site 398579008262 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 398579008263 KMSKS motif; other site 398579008264 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 398579008265 tRNA binding surface [nucleotide binding]; other site 398579008266 anticodon binding site; other site 398579008267 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 398579008268 substrate binding site [chemical binding]; other site 398579008269 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398579008270 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 398579008271 putative active site [active] 398579008272 putative metal binding site [ion binding]; other site 398579008273 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 398579008274 active site 398579008275 dinuclear metal binding site [ion binding]; other site 398579008276 dimerization interface [polypeptide binding]; other site 398579008277 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 398579008278 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 398579008279 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398579008280 active site 398579008281 HIGH motif; other site 398579008282 nucleotide binding site [chemical binding]; other site 398579008283 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 398579008284 KMSKS motif; other site 398579008285 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 398579008286 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 398579008287 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 398579008288 G1 box; other site 398579008289 GTP/Mg2+ binding site [chemical binding]; other site 398579008290 Switch I region; other site 398579008291 G2 box; other site 398579008292 G3 box; other site 398579008293 Switch II region; other site 398579008294 G4 box; other site 398579008295 G5 box; other site 398579008296 Nucleoside recognition; Region: Gate; pfam07670 398579008297 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 398579008298 Nucleoside recognition; Region: Gate; pfam07670 398579008299 FeoA domain; Region: FeoA; pfam04023 398579008300 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 398579008301 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 398579008302 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 398579008303 Protein of unknown function (DUF3374); Region: DUF3374; pfam11854 398579008304 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 398579008305 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 398579008306 heme-binding residues [chemical binding]; other site 398579008307 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 398579008308 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 398579008309 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 398579008310 heme-binding residues [chemical binding]; other site 398579008311 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 398579008312 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 398579008313 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 398579008314 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 398579008315 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 398579008316 Protein of unknown function (DUF3374); Region: DUF3374; pfam11854 398579008317 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 398579008318 putative uracil binding site [chemical binding]; other site 398579008319 putative active site [active] 398579008320 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 398579008321 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 398579008322 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 398579008323 outer membrane protein A; Reviewed; Region: PRK10808 398579008324 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 398579008325 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398579008326 ligand binding site [chemical binding]; other site 398579008327 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 398579008328 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 398579008329 non-specific DNA binding site [nucleotide binding]; other site 398579008330 salt bridge; other site 398579008331 sequence-specific DNA binding site [nucleotide binding]; other site 398579008332 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 398579008333 fructuronate transporter; Provisional; Region: PRK10034; cl15264 398579008334 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 398579008335 putative pyridoxal-dependent aspartate 1-decarboxylase; Region: NOD_PanD_pyr; TIGR03799 398579008336 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398579008337 catalytic residue [active] 398579008338 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 398579008339 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 398579008340 Helix-turn-helix domain; Region: HTH_18; pfam12833 398579008341 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398579008342 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579008343 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579008344 metal binding site [ion binding]; metal-binding site 398579008345 active site 398579008346 I-site; other site 398579008347 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 398579008348 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 398579008349 LPP20 lipoprotein; Region: LPP20; pfam02169 398579008350 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 398579008351 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398579008352 catalytic residue [active] 398579008353 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 398579008354 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 398579008355 active site 398579008356 substrate binding site [chemical binding]; other site 398579008357 metal binding site [ion binding]; metal-binding site 398579008358 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 398579008359 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 398579008360 active site 398579008361 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 398579008362 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398579008363 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398579008364 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 398579008365 N-terminal domain interface [polypeptide binding]; other site 398579008366 dimer interface [polypeptide binding]; other site 398579008367 substrate binding pocket (H-site) [chemical binding]; other site 398579008368 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 398579008369 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398579008370 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398579008371 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 398579008372 NAD(P) binding site [chemical binding]; other site 398579008373 active site 398579008374 peptide synthase; Provisional; Region: PRK09274 398579008375 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_1; cd05910 398579008376 acyl-activating enzyme (AAE) consensus motif; other site 398579008377 putative AMP binding site [chemical binding]; other site 398579008378 putative active site [active] 398579008379 putative CoA binding site [chemical binding]; other site 398579008380 haloalkane dehalogenase; Provisional; Region: PRK03592 398579008381 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 398579008382 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 398579008383 dimer interface [polypeptide binding]; other site 398579008384 active site 398579008385 CoA binding pocket [chemical binding]; other site 398579008386 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 398579008387 S-adenosylmethionine binding site [chemical binding]; other site 398579008388 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 398579008389 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 398579008390 active site 398579008391 BCCT family transporter; Region: BCCT; pfam02028 398579008392 transcriptional regulator PhoU; Provisional; Region: PRK11115 398579008393 PhoU domain; Region: PhoU; pfam01895 398579008394 PhoU domain; Region: PhoU; pfam01895 398579008395 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 398579008396 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 398579008397 Walker A/P-loop; other site 398579008398 ATP binding site [chemical binding]; other site 398579008399 Q-loop/lid; other site 398579008400 ABC transporter signature motif; other site 398579008401 Walker B; other site 398579008402 D-loop; other site 398579008403 H-loop/switch region; other site 398579008404 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 398579008405 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 398579008406 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 398579008407 dimer interface [polypeptide binding]; other site 398579008408 conserved gate region; other site 398579008409 putative PBP binding loops; other site 398579008410 ABC-ATPase subunit interface; other site 398579008411 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 398579008412 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 398579008413 conserved gate region; other site 398579008414 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 398579008415 ABC-ATPase subunit interface; other site 398579008416 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 398579008417 ACT domain; Region: ACT_6; pfam13740 398579008418 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 398579008419 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579008420 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579008421 metal binding site [ion binding]; metal-binding site 398579008422 active site 398579008423 I-site; other site 398579008424 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 398579008425 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579008426 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 398579008427 putative substrate binding pocket [chemical binding]; other site 398579008428 putative dimerization interface [polypeptide binding]; other site 398579008429 lichenase, member of glycosyl hydrolase family 16; Region: GH16_lichenase; cd02175 398579008430 active site 398579008431 active site 398579008432 catalytic residues [active] 398579008433 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 398579008434 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 398579008435 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 398579008436 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 398579008437 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 398579008438 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 398579008439 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398579008440 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 398579008441 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 398579008442 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 398579008443 active site 398579008444 RNA/DNA hybrid binding site [nucleotide binding]; other site 398579008445 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 398579008446 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 398579008447 interface (dimer of trimers) [polypeptide binding]; other site 398579008448 Substrate-binding/catalytic site; other site 398579008449 Zn-binding sites [ion binding]; other site 398579008450 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; pfam07073 398579008451 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 398579008452 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 398579008453 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 398579008454 Nucleoside recognition; Region: Gate; pfam07670 398579008455 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 398579008456 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 398579008457 universal stress protein UspE; Provisional; Region: PRK11175 398579008458 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 398579008459 Ligand Binding Site [chemical binding]; other site 398579008460 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398579008461 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 398579008462 active site 398579008463 metal binding site [ion binding]; metal-binding site 398579008464 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 398579008465 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 398579008466 catalytic residues [active] 398579008467 catalytic nucleophile [active] 398579008468 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 398579008469 DNA-binding interface [nucleotide binding]; DNA binding site 398579008470 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 398579008471 putative substrate translocation pore; other site 398579008472 Cupin domain; Region: Cupin_2; cl17218 398579008473 Helix-turn-helix domain; Region: HTH_18; pfam12833 398579008474 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 398579008475 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 398579008476 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 398579008477 heme-binding residues [chemical binding]; other site 398579008478 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 398579008479 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398579008480 Walker A/P-loop; other site 398579008481 ATP binding site [chemical binding]; other site 398579008482 Q-loop/lid; other site 398579008483 ABC transporter signature motif; other site 398579008484 Walker B; other site 398579008485 D-loop; other site 398579008486 H-loop/switch region; other site 398579008487 ABC transporter; Region: ABC_tran_2; pfam12848 398579008488 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398579008489 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 398579008490 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 398579008491 metal-binding site [ion binding] 398579008492 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398579008493 Soluble P-type ATPase [General function prediction only]; Region: COG4087 398579008494 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 398579008495 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 398579008496 DNA binding residues [nucleotide binding] 398579008497 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 398579008498 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398579008499 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398579008500 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 398579008501 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398579008502 NAD(P) binding site [chemical binding]; other site 398579008503 active site 398579008504 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 398579008505 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 398579008506 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 398579008507 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 398579008508 substrate binding site [chemical binding]; other site 398579008509 oxyanion hole (OAH) forming residues; other site 398579008510 trimer interface [polypeptide binding]; other site 398579008511 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 398579008512 enoyl-CoA hydratase; Provisional; Region: PRK09076 398579008513 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 398579008514 substrate binding site [chemical binding]; other site 398579008515 oxyanion hole (OAH) forming residues; other site 398579008516 trimer interface [polypeptide binding]; other site 398579008517 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 398579008518 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398579008519 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398579008520 active site 398579008521 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 398579008522 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 398579008523 tetrameric interface [polypeptide binding]; other site 398579008524 NAD binding site [chemical binding]; other site 398579008525 catalytic residues [active] 398579008526 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 398579008527 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 398579008528 dimer interface [polypeptide binding]; other site 398579008529 active site 398579008530 homoserine O-succinyltransferase; Provisional; Region: PRK05368 398579008531 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 398579008532 proposed active site lysine [active] 398579008533 conserved cys residue [active] 398579008534 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 398579008535 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 398579008536 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398579008537 NAD(P) binding site [chemical binding]; other site 398579008538 active site 398579008539 outer membrane protein W; Provisional; Region: PRK10959 398579008540 Phosphotransferase enzyme family; Region: APH; pfam01636 398579008541 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 398579008542 acyl-CoA thioesterase II; Provisional; Region: PRK10526 398579008543 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 398579008544 active site 398579008545 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 398579008546 catalytic triad [active] 398579008547 dimer interface [polypeptide binding]; other site 398579008548 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398579008549 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 398579008550 NAD(P) binding site [chemical binding]; other site 398579008551 active site 398579008552 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 398579008553 UbiA prenyltransferase family; Region: UbiA; pfam01040 398579008554 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 398579008555 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 398579008556 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 398579008557 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 398579008558 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398579008559 acyl-activating enzyme (AAE) consensus motif; other site 398579008560 AMP binding site [chemical binding]; other site 398579008561 active site 398579008562 CoA binding site [chemical binding]; other site 398579008563 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 398579008564 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 398579008565 DNA binding residues [nucleotide binding] 398579008566 putative dimer interface [polypeptide binding]; other site 398579008567 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 398579008568 isovaleryl-CoA dehydrogenase; Region: PLN02519 398579008569 substrate binding site [chemical binding]; other site 398579008570 FAD binding site [chemical binding]; other site 398579008571 catalytic base [active] 398579008572 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 398579008573 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 398579008574 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 398579008575 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 398579008576 substrate binding site [chemical binding]; other site 398579008577 oxyanion hole (OAH) forming residues; other site 398579008578 trimer interface [polypeptide binding]; other site 398579008579 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 398579008580 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398579008581 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 398579008582 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 398579008583 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 398579008584 carboxyltransferase (CT) interaction site; other site 398579008585 biotinylation site [posttranslational modification]; other site 398579008586 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 398579008587 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 398579008588 active site 398579008589 catalytic residues [active] 398579008590 metal binding site [ion binding]; metal-binding site 398579008591 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 398579008592 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 398579008593 Phosphotransferase enzyme family; Region: APH; pfam01636 398579008594 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 398579008595 active site 398579008596 ATP binding site [chemical binding]; other site 398579008597 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; cl17270 398579008598 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 398579008599 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 398579008600 Protein export membrane protein; Region: SecD_SecF; cl14618 398579008601 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 398579008602 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579008603 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398579008604 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579008605 active site 398579008606 phosphorylation site [posttranslational modification] 398579008607 intermolecular recognition site; other site 398579008608 dimerization interface [polypeptide binding]; other site 398579008609 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 398579008610 DNA binding site [nucleotide binding] 398579008611 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398579008612 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 398579008613 dimer interface [polypeptide binding]; other site 398579008614 phosphorylation site [posttranslational modification] 398579008615 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579008616 ATP binding site [chemical binding]; other site 398579008617 Mg2+ binding site [ion binding]; other site 398579008618 G-X-G motif; other site 398579008619 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 398579008620 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 398579008621 homotrimer interaction site [polypeptide binding]; other site 398579008622 putative active site [active] 398579008623 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 398579008624 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 398579008625 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 398579008626 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 398579008627 molybdopterin cofactor binding site; other site 398579008628 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 398579008629 molybdopterin cofactor binding site; other site 398579008630 Protein of unknown function (DUF3374); Region: DUF3374; pfam11854 398579008631 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 398579008632 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 398579008633 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 398579008634 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 398579008635 Phospholipid methyltransferase; Region: PEMT; pfam04191 398579008636 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 398579008637 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 398579008638 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 398579008639 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 398579008640 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 398579008641 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 398579008642 Dimer interface [polypeptide binding]; other site 398579008643 BRCT sequence motif; other site 398579008644 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 398579008645 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 398579008646 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 398579008647 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 398579008648 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 398579008649 Sel1-like repeats; Region: SEL1; smart00671 398579008650 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 398579008651 Sel1-like repeats; Region: SEL1; smart00671 398579008652 Sel1-like repeats; Region: SEL1; smart00671 398579008653 Sel1-like repeats; Region: SEL1; smart00671 398579008654 Sel1-like repeats; Region: SEL1; smart00671 398579008655 Sel1-like repeats; Region: SEL1; smart00671 398579008656 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398579008657 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; pfam10142 398579008658 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 398579008659 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 398579008660 N-terminal plug; other site 398579008661 ligand-binding site [chemical binding]; other site 398579008662 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579008663 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579008664 LysR substrate binding domain; Region: LysR_substrate; pfam03466 398579008665 dimerization interface [polypeptide binding]; other site 398579008666 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398579008667 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398579008668 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 398579008669 LemA family; Region: LemA; cl00742 398579008670 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 398579008671 thymidine kinase; Provisional; Region: PRK04296 398579008672 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 398579008673 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 398579008674 active site 398579008675 Zn binding site [ion binding]; other site 398579008676 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 398579008677 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 398579008678 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 398579008679 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 398579008680 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 398579008681 Ligand binding site [chemical binding]; other site 398579008682 Electron transfer flavoprotein domain; Region: ETF; pfam01012 398579008683 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 398579008684 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 398579008685 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 398579008686 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 398579008687 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 398579008688 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 398579008689 active site 398579008690 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 398579008691 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 398579008692 Amidohydrolase; Region: Amidohydro_4; pfam13147 398579008693 active site 398579008694 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 398579008695 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 398579008696 homodimer interaction site [polypeptide binding]; other site 398579008697 cofactor binding site; other site 398579008698 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 398579008699 putative trimer interface [polypeptide binding]; other site 398579008700 colanic acid biosynthesis acetyltransferase WcaB; Region: WcaB; TIGR04016 398579008701 putative CoA binding site [chemical binding]; other site 398579008702 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 398579008703 trimer interface [polypeptide binding]; other site 398579008704 active site 398579008705 substrate binding site [chemical binding]; other site 398579008706 CoA binding site [chemical binding]; other site 398579008707 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 398579008708 Ligand Binding Site [chemical binding]; other site 398579008709 Predicted amidohydrolase [General function prediction only]; Region: COG0388 398579008710 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 398579008711 putative active site [active] 398579008712 catalytic triad [active] 398579008713 putative dimer interface [polypeptide binding]; other site 398579008714 prolyl-tRNA synthetase; Provisional; Region: PRK09194 398579008715 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 398579008716 dimer interface [polypeptide binding]; other site 398579008717 motif 1; other site 398579008718 active site 398579008719 motif 2; other site 398579008720 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 398579008721 putative deacylase active site [active] 398579008722 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 398579008723 active site 398579008724 motif 3; other site 398579008725 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 398579008726 anticodon binding site; other site 398579008727 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 398579008728 nucleophile elbow; other site 398579008729 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 398579008730 active site 398579008731 catalytic triad [active] 398579008732 oxyanion hole [active] 398579008733 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 398579008734 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 398579008735 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 398579008736 TrkA-N domain; Region: TrkA_N; pfam02254 398579008737 TrkA-C domain; Region: TrkA_C; pfam02080 398579008738 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579008739 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579008740 metal binding site [ion binding]; metal-binding site 398579008741 active site 398579008742 I-site; other site 398579008743 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 398579008744 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 398579008745 Ligand Binding Site [chemical binding]; other site 398579008746 TilS substrate binding domain; Region: TilS; pfam09179 398579008747 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 398579008748 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 398579008749 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 398579008750 putative active site [active] 398579008751 putative PHP Thumb interface [polypeptide binding]; other site 398579008752 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 398579008753 generic binding surface II; other site 398579008754 generic binding surface I; other site 398579008755 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 398579008756 RNA/DNA hybrid binding site [nucleotide binding]; other site 398579008757 active site 398579008758 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 398579008759 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 398579008760 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 398579008761 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 398579008762 active site 398579008763 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 398579008764 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 398579008765 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 398579008766 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 398579008767 trimer interface [polypeptide binding]; other site 398579008768 active site 398579008769 UDP-GlcNAc binding site [chemical binding]; other site 398579008770 lipid binding site [chemical binding]; lipid-binding site 398579008771 periplasmic chaperone; Provisional; Region: PRK10780 398579008772 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 398579008773 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 398579008774 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 398579008775 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 398579008776 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 398579008777 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 398579008778 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 398579008779 Surface antigen; Region: Bac_surface_Ag; pfam01103 398579008780 zinc metallopeptidase RseP; Provisional; Region: PRK10779 398579008781 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 398579008782 active site 398579008783 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 398579008784 protein binding site [polypeptide binding]; other site 398579008785 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 398579008786 protein binding site [polypeptide binding]; other site 398579008787 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 398579008788 putative substrate binding region [chemical binding]; other site 398579008789 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 398579008790 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 398579008791 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 398579008792 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 398579008793 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 398579008794 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 398579008795 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 398579008796 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 398579008797 catalytic residue [active] 398579008798 putative FPP diphosphate binding site; other site 398579008799 putative FPP binding hydrophobic cleft; other site 398579008800 dimer interface [polypeptide binding]; other site 398579008801 putative IPP diphosphate binding site; other site 398579008802 ribosome recycling factor; Reviewed; Region: frr; PRK00083 398579008803 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 398579008804 hinge region; other site 398579008805 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 398579008806 putative nucleotide binding site [chemical binding]; other site 398579008807 uridine monophosphate binding site [chemical binding]; other site 398579008808 homohexameric interface [polypeptide binding]; other site 398579008809 elongation factor Ts; Provisional; Region: tsf; PRK09377 398579008810 UBA/TS-N domain; Region: UBA; pfam00627 398579008811 Elongation factor TS; Region: EF_TS; pfam00889 398579008812 Elongation factor TS; Region: EF_TS; pfam00889 398579008813 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 398579008814 rRNA interaction site [nucleotide binding]; other site 398579008815 S8 interaction site; other site 398579008816 putative laminin-1 binding site; other site 398579008817 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 398579008818 active site 398579008819 PII uridylyl-transferase; Provisional; Region: PRK05007 398579008820 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 398579008821 metal binding triad; other site 398579008822 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 398579008823 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398579008824 Zn2+ binding site [ion binding]; other site 398579008825 Mg2+ binding site [ion binding]; other site 398579008826 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 398579008827 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 398579008828 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 398579008829 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 398579008830 trimer interface [polypeptide binding]; other site 398579008831 active site 398579008832 substrate binding site [chemical binding]; other site 398579008833 CoA binding site [chemical binding]; other site 398579008834 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 398579008835 flavodoxin; Provisional; Region: PRK08105 398579008836 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 398579008837 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 398579008838 probable active site [active] 398579008839 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 398579008840 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 398579008841 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 398579008842 Protein of unknown function (DUF962); Region: DUF962; pfam06127 398579008843 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398579008844 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 398579008845 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 398579008846 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; pfam10071 398579008847 SecY interacting protein Syd; Provisional; Region: PRK04968 398579008848 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 398579008849 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 398579008850 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 398579008851 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 398579008852 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579008853 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 398579008854 putative substrate binding pocket [chemical binding]; other site 398579008855 putative dimerization interface [polypeptide binding]; other site 398579008856 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 398579008857 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398579008858 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 398579008859 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 398579008860 Winged helix-turn helix; Region: HTH_29; pfam13551 398579008861 Homeodomain-like domain; Region: HTH_23; pfam13384 398579008862 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 398579008863 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 398579008864 active site 398579008865 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 398579008866 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 398579008867 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 398579008868 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 398579008869 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 398579008870 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 398579008871 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 398579008872 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 398579008873 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 398579008874 putative NADP binding site [chemical binding]; other site 398579008875 active site 398579008876 Acyl transferase domain; Region: Acyl_transf_1; cl08282 398579008877 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 398579008878 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 398579008879 active site 398579008880 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 398579008881 active site 398579008882 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 398579008883 active site 2 [active] 398579008884 dimer interface [polypeptide binding]; other site 398579008885 active site 1 [active] 398579008886 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 398579008887 active site 1 [active] 398579008888 dimer interface [polypeptide binding]; other site 398579008889 active site 2 [active] 398579008890 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding...; Region: NPD_FabD; cd04742 398579008891 FMN binding site [chemical binding]; other site 398579008892 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 398579008893 substrate binding site [chemical binding]; other site 398579008894 putative catalytic residue [active] 398579008895 CHASE4 domain; Region: CHASE4; pfam05228 398579008896 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579008897 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579008898 metal binding site [ion binding]; metal-binding site 398579008899 active site 398579008900 I-site; other site 398579008901 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 398579008902 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 398579008903 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 398579008904 active site 398579008905 Uncharacterized conserved protein (DUF2042); Region: DUF2042; cl10727 398579008906 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 398579008907 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 398579008908 Integrase core domain; Region: rve_3; cl15866 398579008909 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 398579008910 Radical SAM superfamily; Region: Radical_SAM; pfam04055 398579008911 FeS/SAM binding site; other site 398579008912 AAA domain; Region: AAA_17; pfam13207 398579008913 AAA domain; Region: AAA_18; pfam13238 398579008914 Domain of unknown function (DUF1851); Region: DUF1851; pfam08906 398579008915 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 398579008916 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 398579008917 ATP binding site [chemical binding]; other site 398579008918 Mg++ binding site [ion binding]; other site 398579008919 motif III; other site 398579008920 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 398579008921 nucleotide binding region [chemical binding]; other site 398579008922 ATP-binding site [chemical binding]; other site 398579008923 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 398579008924 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 398579008925 metal binding site [ion binding]; metal-binding site 398579008926 putative dimer interface [polypeptide binding]; other site 398579008927 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 398579008928 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 398579008929 N-terminal plug; other site 398579008930 ligand-binding site [chemical binding]; other site 398579008931 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 398579008932 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 398579008933 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 398579008934 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398579008935 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398579008936 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 398579008937 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 398579008938 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398579008939 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579008940 active site 398579008941 phosphorylation site [posttranslational modification] 398579008942 intermolecular recognition site; other site 398579008943 dimerization interface [polypeptide binding]; other site 398579008944 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 398579008945 DNA binding site [nucleotide binding] 398579008946 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398579008947 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579008948 ATP binding site [chemical binding]; other site 398579008949 Mg2+ binding site [ion binding]; other site 398579008950 G-X-G motif; other site 398579008951 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 398579008952 Leucine rich repeat; Region: LRR_8; pfam13855 398579008953 Leucine rich repeat; Region: LRR_8; pfam13855 398579008954 Catalytic domain of Protein Kinases; Region: PKc; cd00180 398579008955 active site 398579008956 ATP binding site [chemical binding]; other site 398579008957 substrate binding site [chemical binding]; other site 398579008958 activation loop (A-loop); other site 398579008959 Protein of unknown function, DUF599; Region: DUF599; pfam04654 398579008960 Protein of unknown function (DUF2496); Region: DUF2496; pfam10689 398579008961 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 398579008962 peptidase T; Region: peptidase-T; TIGR01882 398579008963 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 398579008964 metal binding site [ion binding]; metal-binding site 398579008965 dimer interface [polypeptide binding]; other site 398579008966 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398579008967 NAD(P) binding site [chemical binding]; other site 398579008968 active site 398579008969 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 398579008970 Family of unknown function (DUF633); Region: DUF633; pfam04816 398579008971 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_27; cd04686 398579008972 nudix motif; other site 398579008973 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 398579008974 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398579008975 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 398579008976 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 398579008977 putative kinase; Provisional; Region: PRK09954 398579008978 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 398579008979 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 398579008980 substrate binding site [chemical binding]; other site 398579008981 ATP binding site [chemical binding]; other site 398579008982 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 398579008983 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 398579008984 TrkA-C domain; Region: TrkA_C; pfam02080 398579008985 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 398579008986 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 398579008987 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579008988 catalytic residue [active] 398579008989 Uncharacterized conserved protein [Function unknown]; Region: COG1359 398579008990 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 398579008991 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 398579008992 putative active site [active] 398579008993 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 398579008994 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 398579008995 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 398579008996 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 398579008997 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 398579008998 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 398579008999 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 398579009000 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579009001 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579009002 metal binding site [ion binding]; metal-binding site 398579009003 active site 398579009004 I-site; other site 398579009005 YfaZ precursor; Region: YfaZ; pfam07437 398579009006 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 398579009007 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 398579009008 catalytic residues [active] 398579009009 dimer interface [polypeptide binding]; other site 398579009010 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 398579009011 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 398579009012 active site 398579009013 Zn binding site [ion binding]; other site 398579009014 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 398579009015 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 398579009016 PBP superfamily domain; Region: PBP_like_2; cl17296 398579009017 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 398579009018 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 398579009019 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 398579009020 putative active site [active] 398579009021 heme pocket [chemical binding]; other site 398579009022 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 398579009023 dimer interface [polypeptide binding]; other site 398579009024 phosphorylation site [posttranslational modification] 398579009025 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579009026 ATP binding site [chemical binding]; other site 398579009027 Mg2+ binding site [ion binding]; other site 398579009028 G-X-G motif; other site 398579009029 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 398579009030 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579009031 active site 398579009032 phosphorylation site [posttranslational modification] 398579009033 intermolecular recognition site; other site 398579009034 dimerization interface [polypeptide binding]; other site 398579009035 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 398579009036 DNA binding site [nucleotide binding] 398579009037 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 398579009038 trimer interface [polypeptide binding]; other site 398579009039 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398579009040 eyelet of channel; other site 398579009041 recombination associated protein; Reviewed; Region: rdgC; PRK00321 398579009042 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 398579009043 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 398579009044 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 398579009045 protein binding site [polypeptide binding]; other site 398579009046 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 398579009047 TPR motif; other site 398579009048 binding surface 398579009049 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 398579009050 TPR motif; other site 398579009051 binding surface 398579009052 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398579009053 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398579009054 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 398579009055 binding surface 398579009056 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398579009057 TPR motif; other site 398579009058 bZIP Maf transcription factor; Region: bZIP_Maf; pfam03131 398579009059 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579009060 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579009061 metal binding site [ion binding]; metal-binding site 398579009062 active site 398579009063 I-site; other site 398579009064 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 398579009065 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 398579009066 flap endonuclease-like protein; Provisional; Region: PRK09482 398579009067 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 398579009068 active site 398579009069 metal binding site 1 [ion binding]; metal-binding site 398579009070 putative 5' ssDNA interaction site; other site 398579009071 metal binding site 3; metal-binding site 398579009072 metal binding site 2 [ion binding]; metal-binding site 398579009073 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 398579009074 putative DNA binding site [nucleotide binding]; other site 398579009075 putative metal binding site [ion binding]; other site 398579009076 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 398579009077 MarC family integral membrane protein; Region: MarC; pfam01914 398579009078 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398579009079 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398579009080 isocitrate dehydrogenase; Provisional; Region: PRK08997 398579009081 tartrate dehydrogenase; Region: TTC; TIGR02089 398579009082 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 398579009083 FtsJ-like methyltransferase; Region: FtsJ; cl17430 398579009084 Protein of unknown function (DUF423); Region: DUF423; pfam04241 398579009085 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 398579009086 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398579009087 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579009088 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 398579009089 dimerization interface [polypeptide binding]; other site 398579009090 substrate binding pocket [chemical binding]; other site 398579009091 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 398579009092 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 398579009093 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 398579009094 Ligand Binding Site [chemical binding]; other site 398579009095 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 398579009096 active site residue [active] 398579009097 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 398579009098 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 398579009099 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398579009100 ligand binding site [chemical binding]; other site 398579009101 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 398579009102 flagellar motor protein PomA; Reviewed; Region: PRK08990 398579009103 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 398579009104 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 398579009105 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 398579009106 substrate binding pocket [chemical binding]; other site 398579009107 chain length determination region; other site 398579009108 substrate-Mg2+ binding site; other site 398579009109 catalytic residues [active] 398579009110 aspartate-rich region 1; other site 398579009111 active site lid residues [active] 398579009112 aspartate-rich region 2; other site 398579009113 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 398579009114 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 398579009115 TPP-binding site; other site 398579009116 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 398579009117 PYR/PP interface [polypeptide binding]; other site 398579009118 dimer interface [polypeptide binding]; other site 398579009119 TPP binding site [chemical binding]; other site 398579009120 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398579009121 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 398579009122 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 398579009123 dimer interface [polypeptide binding]; other site 398579009124 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 398579009125 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 398579009126 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 398579009127 L-lactate permease; Region: Lactate_perm; cl00701 398579009128 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 398579009129 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398579009130 FAD binding domain; Region: FAD_binding_4; pfam01565 398579009131 4Fe-4S binding domain; Region: Fer4; pfam00037 398579009132 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 398579009133 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 398579009134 Cysteine-rich domain; Region: CCG; pfam02754 398579009135 Cysteine-rich domain; Region: CCG; pfam02754 398579009136 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 398579009137 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 398579009138 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 398579009139 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398579009140 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 398579009141 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 398579009142 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 398579009143 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 398579009144 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 398579009145 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 398579009146 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 398579009147 ATP binding site [chemical binding]; other site 398579009148 Mg++ binding site [ion binding]; other site 398579009149 motif III; other site 398579009150 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 398579009151 nucleotide binding region [chemical binding]; other site 398579009152 ATP-binding site [chemical binding]; other site 398579009153 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 398579009154 PAS domain S-box; Region: sensory_box; TIGR00229 398579009155 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 398579009156 putative active site [active] 398579009157 heme pocket [chemical binding]; other site 398579009158 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 398579009159 PAS fold; Region: PAS_3; pfam08447 398579009160 putative active site [active] 398579009161 heme pocket [chemical binding]; other site 398579009162 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 398579009163 PAS domain; Region: PAS_9; pfam13426 398579009164 putative active site [active] 398579009165 heme pocket [chemical binding]; other site 398579009166 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579009167 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579009168 metal binding site [ion binding]; metal-binding site 398579009169 active site 398579009170 I-site; other site 398579009171 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 398579009172 OsmC-like protein; Region: OsmC; pfam02566 398579009173 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 398579009174 active site 398579009175 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579009176 metal binding site [ion binding]; metal-binding site 398579009177 active site 398579009178 I-site; other site 398579009179 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 398579009180 HDOD domain; Region: HDOD; pfam08668 398579009181 putative protease; Provisional; Region: PRK15452 398579009182 Peptidase family U32; Region: Peptidase_U32; pfam01136 398579009183 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 398579009184 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 398579009185 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 398579009186 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 398579009187 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 398579009188 active site 398579009189 Helix-turn-helix domain; Region: HTH_18; pfam12833 398579009190 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398579009191 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 398579009192 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 398579009193 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 398579009194 active site 398579009195 SCP-2 sterol transfer family; Region: SCP2; cl01225 398579009196 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 398579009197 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 398579009198 Peptidase family U32; Region: Peptidase_U32; pfam01136 398579009199 putative protease; Provisional; Region: PRK15447 398579009200 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 398579009201 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 398579009202 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 398579009203 substrate binding site [chemical binding]; other site 398579009204 catalytic Zn binding site [ion binding]; other site 398579009205 NAD binding site [chemical binding]; other site 398579009206 structural Zn binding site [ion binding]; other site 398579009207 dimer interface [polypeptide binding]; other site 398579009208 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 398579009209 PAS domain; Region: PAS_9; pfam13426 398579009210 putative active site [active] 398579009211 heme pocket [chemical binding]; other site 398579009212 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 398579009213 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398579009214 dimer interface [polypeptide binding]; other site 398579009215 putative CheW interface [polypeptide binding]; other site 398579009216 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 398579009217 Nucleoside recognition; Region: Gate; pfam07670 398579009218 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 398579009219 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398579009220 putative active site [active] 398579009221 putative metal binding site [ion binding]; other site 398579009222 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 398579009223 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 398579009224 DEAD-like helicases superfamily; Region: DEXDc; smart00487 398579009225 ATP binding site [chemical binding]; other site 398579009226 Mg++ binding site [ion binding]; other site 398579009227 motif III; other site 398579009228 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 398579009229 nucleotide binding region [chemical binding]; other site 398579009230 ATP-binding site [chemical binding]; other site 398579009231 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398579009232 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 398579009233 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 398579009234 PilZ domain; Region: PilZ; pfam07238 398579009235 DNA repair protein RadA; Provisional; Region: PRK11823 398579009236 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 398579009237 Walker A motif; other site 398579009238 ATP binding site [chemical binding]; other site 398579009239 Walker B motif; other site 398579009240 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 398579009241 PilZ domain; Region: PilZ; pfam07238 398579009242 PilZ domain; Region: PilZ; pfam07238 398579009243 Predicted membrane protein (DUF2127); Region: DUF2127; pfam09900 398579009244 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 398579009245 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 398579009246 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 398579009247 Sulfatase; Region: Sulfatase; pfam00884 398579009248 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 398579009249 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 398579009250 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 398579009251 thiosulfate reductase PhsA; Provisional; Region: PRK15488 398579009252 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 398579009253 putative [Fe4-S4] binding site [ion binding]; other site 398579009254 putative molybdopterin cofactor binding site [chemical binding]; other site 398579009255 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 398579009256 putative molybdopterin cofactor binding site; other site 398579009257 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 398579009258 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 398579009259 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398579009260 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 398579009261 dimer interface [polypeptide binding]; other site 398579009262 phosphorylation site [posttranslational modification] 398579009263 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579009264 ATP binding site [chemical binding]; other site 398579009265 Mg2+ binding site [ion binding]; other site 398579009266 G-X-G motif; other site 398579009267 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 398579009268 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579009269 active site 398579009270 phosphorylation site [posttranslational modification] 398579009271 intermolecular recognition site; other site 398579009272 dimerization interface [polypeptide binding]; other site 398579009273 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 398579009274 DNA binding residues [nucleotide binding] 398579009275 dimerization interface [polypeptide binding]; other site 398579009276 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398579009277 phosphoserine phosphatase SerB; Region: serB; TIGR00338 398579009278 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 398579009279 motif II; other site 398579009280 Bacterial virulence factor haemolysin; Region: SMP_2; pfam10144 398579009281 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 398579009282 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 398579009283 phosphopentomutase; Provisional; Region: PRK05362 398579009284 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 398579009285 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 398579009286 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 398579009287 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 398579009288 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 398579009289 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 398579009290 intersubunit interface [polypeptide binding]; other site 398579009291 active site 398579009292 catalytic residue [active] 398579009293 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; pfam03502 398579009294 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 398579009295 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 398579009296 Nucleoside recognition; Region: Gate; pfam07670 398579009297 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 398579009298 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 398579009299 active site 398579009300 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 398579009301 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 398579009302 G1 box; other site 398579009303 putative GEF interaction site [polypeptide binding]; other site 398579009304 GTP/Mg2+ binding site [chemical binding]; other site 398579009305 Switch I region; other site 398579009306 G2 box; other site 398579009307 G3 box; other site 398579009308 Switch II region; other site 398579009309 G4 box; other site 398579009310 G5 box; other site 398579009311 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 398579009312 lipoprotein NlpI; Provisional; Region: PRK11189 398579009313 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 398579009314 binding surface 398579009315 TPR motif; other site 398579009316 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 398579009317 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 398579009318 RNase E interface [polypeptide binding]; other site 398579009319 trimer interface [polypeptide binding]; other site 398579009320 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 398579009321 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 398579009322 RNase E interface [polypeptide binding]; other site 398579009323 trimer interface [polypeptide binding]; other site 398579009324 active site 398579009325 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 398579009326 putative nucleic acid binding region [nucleotide binding]; other site 398579009327 G-X-X-G motif; other site 398579009328 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 398579009329 RNA binding site [nucleotide binding]; other site 398579009330 domain interface; other site 398579009331 biofilm formation regulator HmsP; Provisional; Region: PRK11829 398579009332 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 398579009333 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579009334 metal binding site [ion binding]; metal-binding site 398579009335 active site 398579009336 I-site; other site 398579009337 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 398579009338 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 398579009339 16S/18S rRNA binding site [nucleotide binding]; other site 398579009340 S13e-L30e interaction site [polypeptide binding]; other site 398579009341 25S rRNA binding site [nucleotide binding]; other site 398579009342 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 398579009343 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 398579009344 RNA binding site [nucleotide binding]; other site 398579009345 active site 398579009346 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 398579009347 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 398579009348 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 398579009349 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 398579009350 translation initiation factor IF-2; Region: IF-2; TIGR00487 398579009351 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 398579009352 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 398579009353 G1 box; other site 398579009354 putative GEF interaction site [polypeptide binding]; other site 398579009355 GTP/Mg2+ binding site [chemical binding]; other site 398579009356 Switch I region; other site 398579009357 G2 box; other site 398579009358 G3 box; other site 398579009359 Switch II region; other site 398579009360 G4 box; other site 398579009361 G5 box; other site 398579009362 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 398579009363 Translation-initiation factor 2; Region: IF-2; pfam11987 398579009364 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 398579009365 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 398579009366 NusA N-terminal domain; Region: NusA_N; pfam08529 398579009367 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 398579009368 RNA binding site [nucleotide binding]; other site 398579009369 homodimer interface [polypeptide binding]; other site 398579009370 NusA-like KH domain; Region: KH_5; pfam13184 398579009371 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 398579009372 G-X-X-G motif; other site 398579009373 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 398579009374 ribosome maturation protein RimP; Reviewed; Region: PRK00092 398579009375 Sm and related proteins; Region: Sm_like; cl00259 398579009376 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 398579009377 putative oligomer interface [polypeptide binding]; other site 398579009378 putative RNA binding site [nucleotide binding]; other site 398579009379 Preprotein translocase SecG subunit; Region: SecG; pfam03840 398579009380 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 398579009381 triosephosphate isomerase; Provisional; Region: PRK14567 398579009382 substrate binding site [chemical binding]; other site 398579009383 dimer interface [polypeptide binding]; other site 398579009384 catalytic triad [active] 398579009385 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 398579009386 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 398579009387 active site 398579009388 substrate binding site [chemical binding]; other site 398579009389 metal binding site [ion binding]; metal-binding site 398579009390 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 398579009391 dihydropteroate synthase; Region: DHPS; TIGR01496 398579009392 substrate binding pocket [chemical binding]; other site 398579009393 dimer interface [polypeptide binding]; other site 398579009394 inhibitor binding site; inhibition site 398579009395 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 398579009396 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 398579009397 Walker A motif; other site 398579009398 ATP binding site [chemical binding]; other site 398579009399 Walker B motif; other site 398579009400 arginine finger; other site 398579009401 Peptidase family M41; Region: Peptidase_M41; pfam01434 398579009402 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 398579009403 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 398579009404 S-adenosylmethionine binding site [chemical binding]; other site 398579009405 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 398579009406 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13021 398579009407 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 398579009408 Protein export membrane protein; Region: SecD_SecF; pfam02355 398579009409 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK12933 398579009410 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 398579009411 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 398579009412 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 398579009413 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 398579009414 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 398579009415 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 398579009416 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398579009417 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 398579009418 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 398579009419 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398579009420 ATP-grasp domain; Region: ATP-grasp_4; cl17255 398579009421 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 398579009422 IMP binding site; other site 398579009423 dimer interface [polypeptide binding]; other site 398579009424 interdomain contacts; other site 398579009425 partial ornithine binding site; other site 398579009426 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 398579009427 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 398579009428 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 398579009429 catalytic site [active] 398579009430 subunit interface [polypeptide binding]; other site 398579009431 dihydrodipicolinate reductase; Provisional; Region: PRK00048 398579009432 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 398579009433 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 398579009434 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 398579009435 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 398579009436 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 398579009437 Peptidase family M48; Region: Peptidase_M48; pfam01435 398579009438 chaperone protein DnaJ; Provisional; Region: PRK10767 398579009439 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 398579009440 HSP70 interaction site [polypeptide binding]; other site 398579009441 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 398579009442 substrate binding site [polypeptide binding]; other site 398579009443 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 398579009444 Zn binding sites [ion binding]; other site 398579009445 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 398579009446 dimer interface [polypeptide binding]; other site 398579009447 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 398579009448 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 398579009449 nucleotide binding site [chemical binding]; other site 398579009450 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 398579009451 EamA-like transporter family; Region: EamA; pfam00892 398579009452 EamA-like transporter family; Region: EamA; pfam00892 398579009453 Integrase core domain; Region: rve; pfam00665 398579009454 Integrase core domain; Region: rve_3; pfam13683 398579009455 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 398579009456 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 398579009457 putative catalytic cysteine [active] 398579009458 gamma-glutamyl kinase; Provisional; Region: PRK05429 398579009459 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 398579009460 nucleotide binding site [chemical binding]; other site 398579009461 homotetrameric interface [polypeptide binding]; other site 398579009462 putative phosphate binding site [ion binding]; other site 398579009463 putative allosteric binding site; other site 398579009464 PUA domain; Region: PUA; pfam01472 398579009465 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 398579009466 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 398579009467 AAA domain; Region: AAA_21; pfam13304 398579009468 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 398579009469 interface (dimer of trimers) [polypeptide binding]; other site 398579009470 Substrate-binding/catalytic site; other site 398579009471 Zn-binding sites [ion binding]; other site 398579009472 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 398579009473 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 398579009474 metal binding site [ion binding]; metal-binding site 398579009475 dimer interface [polypeptide binding]; other site 398579009476 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 398579009477 active site 398579009478 DNA polymerase IV; Validated; Region: PRK02406 398579009479 DNA binding site [nucleotide binding] 398579009480 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 398579009481 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 398579009482 heme binding site [chemical binding]; other site 398579009483 ferroxidase pore; other site 398579009484 ferroxidase diiron center [ion binding]; other site 398579009485 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 398579009486 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 398579009487 heme binding site [chemical binding]; other site 398579009488 ferroxidase pore; other site 398579009489 ferroxidase diiron center [ion binding]; other site 398579009490 Protein of unknown function (DUF539); Region: DUF539; cl01129 398579009491 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 398579009492 ApbE family; Region: ApbE; pfam02424 398579009493 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 398579009494 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 398579009495 catalytic loop [active] 398579009496 iron binding site [ion binding]; other site 398579009497 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 398579009498 FAD binding pocket [chemical binding]; other site 398579009499 FAD binding motif [chemical binding]; other site 398579009500 phosphate binding motif [ion binding]; other site 398579009501 beta-alpha-beta structure motif; other site 398579009502 NAD binding pocket [chemical binding]; other site 398579009503 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 398579009504 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 398579009505 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 398579009506 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 398579009507 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 398579009508 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 398579009509 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 398579009510 S-ribosylhomocysteinase; Provisional; Region: PRK02260 398579009511 BolA-like protein; Region: BolA; cl00386 398579009512 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 398579009513 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 398579009514 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 398579009515 S-adenosylmethionine binding site [chemical binding]; other site 398579009516 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 398579009517 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 398579009518 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 398579009519 hypothetical protein; Provisional; Region: PRK11627 398579009520 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 398579009521 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 398579009522 substrate binding site [chemical binding]; other site 398579009523 AmpG-like permease; Region: 2A0125; TIGR00901 398579009524 muropeptide transporter; Reviewed; Region: ampG; PRK11902 398579009525 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 398579009526 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 398579009527 Predicted integral membrane protein [Function unknown]; Region: COG5652 398579009528 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 398579009529 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 398579009530 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 398579009531 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 398579009532 Na2 binding site [ion binding]; other site 398579009533 putative substrate binding site 1 [chemical binding]; other site 398579009534 Na binding site 1 [ion binding]; other site 398579009535 putative substrate binding site 2 [chemical binding]; other site 398579009536 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 398579009537 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 398579009538 active site 398579009539 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 398579009540 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 398579009541 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 398579009542 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 398579009543 Protein of unknown function (DUF819); Region: DUF819; cl02317 398579009544 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 398579009545 Tetratricopeptide repeat; Region: TPR_9; pfam13371 398579009546 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 398579009547 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 398579009548 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 398579009549 S-adenosylmethionine binding site [chemical binding]; other site 398579009550 peptide chain release factor 1; Validated; Region: prfA; PRK00591 398579009551 This domain is found in peptide chain release factors; Region: PCRF; smart00937 398579009552 RF-1 domain; Region: RF-1; pfam00472 398579009553 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 398579009554 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 398579009555 tRNA; other site 398579009556 putative tRNA binding site [nucleotide binding]; other site 398579009557 putative NADP binding site [chemical binding]; other site 398579009558 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 398579009559 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 398579009560 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 398579009561 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 398579009562 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 398579009563 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 398579009564 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 398579009565 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 398579009566 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398579009567 active site 398579009568 GTP-binding protein YchF; Reviewed; Region: PRK09601 398579009569 YchF GTPase; Region: YchF; cd01900 398579009570 G1 box; other site 398579009571 GTP/Mg2+ binding site [chemical binding]; other site 398579009572 Switch I region; other site 398579009573 G2 box; other site 398579009574 Switch II region; other site 398579009575 G3 box; other site 398579009576 G4 box; other site 398579009577 G5 box; other site 398579009578 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 398579009579 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 398579009580 putative active site [active] 398579009581 catalytic residue [active] 398579009582 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK08849 398579009583 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398579009584 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 398579009585 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 398579009586 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 398579009587 FeS/SAM binding site; other site 398579009588 TRAM domain; Region: TRAM; pfam01938 398579009589 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 398579009590 PhoH-like protein; Region: PhoH; pfam02562 398579009591 metal-binding heat shock protein; Provisional; Region: PRK00016 398579009592 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 398579009593 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 398579009594 Transporter associated domain; Region: CorC_HlyC; smart01091 398579009595 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 398579009596 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 398579009597 putative active site [active] 398579009598 catalytic triad [active] 398579009599 putative dimer interface [polypeptide binding]; other site 398579009600 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 398579009601 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 398579009602 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 398579009603 HIGH motif; other site 398579009604 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 398579009605 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398579009606 active site 398579009607 KMSKS motif; other site 398579009608 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 398579009609 tRNA binding surface [nucleotide binding]; other site 398579009610 Lipopolysaccharide-assembly; Region: LptE; cl01125 398579009611 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 398579009612 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 398579009613 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 398579009614 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 398579009615 active site 398579009616 (T/H)XGH motif; other site 398579009617 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 398579009618 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 398579009619 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 398579009620 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 398579009621 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 398579009622 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 398579009623 Transglycosylase SLT domain; Region: SLT_2; pfam13406 398579009624 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 398579009625 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398579009626 rare lipoprotein A; Region: rlpA; TIGR00413 398579009627 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 398579009628 Sporulation related domain; Region: SPOR; pfam05036 398579009629 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 398579009630 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 398579009631 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 398579009632 hypothetical protein; Provisional; Region: PRK04998 398579009633 lipoate-protein ligase B; Provisional; Region: PRK14342 398579009634 lipoyl synthase; Provisional; Region: PRK05481 398579009635 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 398579009636 FeS/SAM binding site; other site 398579009637 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 398579009638 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398579009639 Coenzyme A binding pocket [chemical binding]; other site 398579009640 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cd00413 398579009641 active site 398579009642 catalytic residues [active] 398579009643 Winged helix-turn helix; Region: HTH_33; pfam13592 398579009644 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398579009645 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398579009646 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 398579009647 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 398579009648 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 398579009649 Clp amino terminal domain; Region: Clp_N; pfam02861 398579009650 Clp amino terminal domain; Region: Clp_N; pfam02861 398579009651 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 398579009652 Walker A motif; other site 398579009653 ATP binding site [chemical binding]; other site 398579009654 Walker B motif; other site 398579009655 arginine finger; other site 398579009656 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 398579009657 Walker A motif; other site 398579009658 ATP binding site [chemical binding]; other site 398579009659 Walker B motif; other site 398579009660 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 398579009661 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 398579009662 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 398579009663 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 398579009664 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 398579009665 RNA binding surface [nucleotide binding]; other site 398579009666 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 398579009667 active site 398579009668 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 398579009669 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 398579009670 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 398579009671 dimerization interface [polypeptide binding]; other site 398579009672 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398579009673 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398579009674 dimer interface [polypeptide binding]; other site 398579009675 putative CheW interface [polypeptide binding]; other site 398579009676 ornithine cyclodeaminase; Validated; Region: PRK06141 398579009677 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 398579009678 RNA polymerase sigma factor SigY; Reviewed; Region: PRK09638 398579009679 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398579009680 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 398579009681 DNA binding residues [nucleotide binding] 398579009682 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 398579009683 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 398579009684 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579009685 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579009686 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 398579009687 dimerization interface [polypeptide binding]; other site 398579009688 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 398579009689 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 398579009690 active site 398579009691 catalytic triad [active] 398579009692 PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from...; Region: PA_subtilisin_like; cd02120 398579009693 PA/protease or protease-like domain interface [polypeptide binding]; other site 398579009694 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 398579009695 catalytic residues [active] 398579009696 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 398579009697 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 398579009698 RNA binding surface [nucleotide binding]; other site 398579009699 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 398579009700 active site 398579009701 uracil binding [chemical binding]; other site 398579009702 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 398579009703 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 398579009704 active site 398579009705 Zn binding site [ion binding]; other site 398579009706 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 398579009707 synthetase active site [active] 398579009708 NTP binding site [chemical binding]; other site 398579009709 metal binding site [ion binding]; metal-binding site 398579009710 Domain of unknown function (DUF1870); Region: DUF1870; pfam08965 398579009711 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398579009712 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 398579009713 putative C-terminal domain interface [polypeptide binding]; other site 398579009714 putative GSH binding site (G-site) [chemical binding]; other site 398579009715 putative dimer interface [polypeptide binding]; other site 398579009716 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 398579009717 dimer interface [polypeptide binding]; other site 398579009718 N-terminal domain interface [polypeptide binding]; other site 398579009719 putative substrate binding pocket (H-site) [chemical binding]; other site 398579009720 Bacterial PH domain; Region: DUF304; pfam03703 398579009721 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 398579009722 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 398579009723 Beta-lactamase; Region: Beta-lactamase; pfam00144 398579009724 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 398579009725 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 398579009726 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 398579009727 malate dehydrogenase; Provisional; Region: PRK13529 398579009728 Malic enzyme, N-terminal domain; Region: malic; pfam00390 398579009729 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 398579009730 NAD(P) binding site [chemical binding]; other site 398579009731 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 398579009732 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 398579009733 thiosulfate reductase PhsA; Provisional; Region: PRK15488 398579009734 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 398579009735 putative [Fe4-S4] binding site [ion binding]; other site 398579009736 putative molybdopterin cofactor binding site [chemical binding]; other site 398579009737 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 398579009738 putative molybdopterin cofactor binding site; other site 398579009739 Protein of unknown function (DUF3069); Region: DUF3069; pfam11269 398579009740 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 398579009741 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 398579009742 active site 398579009743 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579009744 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579009745 metal binding site [ion binding]; metal-binding site 398579009746 active site 398579009747 I-site; other site 398579009748 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398579009749 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398579009750 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579009751 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579009752 metal binding site [ion binding]; metal-binding site 398579009753 active site 398579009754 I-site; other site 398579009755 epoxyqueuosine reductase; Region: TIGR00276 398579009756 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 398579009757 Dodecin; Region: Dodecin; pfam07311 398579009758 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 398579009759 Uncharacterized conserved protein [Function unknown]; Region: COG2128 398579009760 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579009761 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579009762 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 398579009763 putative effector binding pocket; other site 398579009764 dimerization interface [polypeptide binding]; other site 398579009765 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 398579009766 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398579009767 catalytic residues [active] 398579009768 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 398579009769 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 398579009770 catalytic residues [active] 398579009771 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 398579009772 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 398579009773 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 398579009774 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 398579009775 DsbD alpha interface [polypeptide binding]; other site 398579009776 catalytic residues [active] 398579009777 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 398579009778 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 398579009779 THF binding site; other site 398579009780 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 398579009781 substrate binding site [chemical binding]; other site 398579009782 THF binding site; other site 398579009783 zinc-binding site [ion binding]; other site 398579009784 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579009785 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579009786 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 398579009787 putative dimerization interface [polypeptide binding]; other site 398579009788 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 398579009789 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 398579009790 active site 398579009791 catalytic triad [active] 398579009792 oxyanion hole [active] 398579009793 switch loop; other site 398579009794 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 398579009795 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 398579009796 N-terminal plug; other site 398579009797 ligand-binding site [chemical binding]; other site 398579009798 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 398579009799 Penicillinase repressor; Region: Pencillinase_R; pfam03965 398579009800 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 398579009801 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 398579009802 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 398579009803 Predicted flavoprotein [General function prediction only]; Region: COG0431 398579009804 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398579009805 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579009806 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579009807 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 398579009808 putative effector binding pocket; other site 398579009809 dimerization interface [polypeptide binding]; other site 398579009810 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398579009811 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 398579009812 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398579009813 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 398579009814 substrate binding pocket [chemical binding]; other site 398579009815 membrane-bound complex binding site; other site 398579009816 hinge residues; other site 398579009817 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 398579009818 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 398579009819 RNA binding surface [nucleotide binding]; other site 398579009820 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 398579009821 active site 398579009822 uracil binding [chemical binding]; other site 398579009823 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 398579009824 active site 398579009825 substrate binding pocket [chemical binding]; other site 398579009826 dimer interface [polypeptide binding]; other site 398579009827 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 398579009828 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 398579009829 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 398579009830 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 398579009831 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 398579009832 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 398579009833 Domain of unknown function (DUF1704); Region: DUF1704; pfam08014 398579009834 glutathione synthetase; Provisional; Region: PRK12458 398579009835 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 398579009836 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 398579009837 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 398579009838 active site 398579009839 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579009840 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579009841 metal binding site [ion binding]; metal-binding site 398579009842 active site 398579009843 I-site; other site 398579009844 VCBS repeat; Region: VCBS_repeat; TIGR01965 398579009845 LVIVD repeat; Region: LVIVD; pfam08309 398579009846 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 398579009847 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 398579009848 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 398579009849 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 398579009850 active site 398579009851 FMN binding site [chemical binding]; other site 398579009852 substrate binding site [chemical binding]; other site 398579009853 3Fe-4S cluster binding site [ion binding]; other site 398579009854 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 398579009855 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 398579009856 PII uridylyl-transferase; Provisional; Region: PRK05007 398579009857 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 398579009858 metal binding triad; other site 398579009859 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 398579009860 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 398579009861 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 398579009862 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 398579009863 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398579009864 Beta-Casp domain; Region: Beta-Casp; smart01027 398579009865 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 398579009866 Protein of unknown function (DUF465); Region: DUF465; pfam04325 398579009867 major curlin subunit; Provisional; Region: csgA; PRK10051 398579009868 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 398579009869 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 398579009870 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 398579009871 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 398579009872 SPFH domain / Band 7 family; Region: Band_7; pfam01145 398579009873 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 398579009874 Leucine-rich repeats; other site 398579009875 Leucine rich repeat; Region: LRR_8; pfam13855 398579009876 Substrate binding site [chemical binding]; other site 398579009877 Leucine rich repeat; Region: LRR_8; pfam13855 398579009878 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 398579009879 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 398579009880 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 398579009881 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 398579009882 active site 398579009883 Zn binding site [ion binding]; other site 398579009884 putative S-transferase; Provisional; Region: PRK11752 398579009885 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 398579009886 C-terminal domain interface [polypeptide binding]; other site 398579009887 GSH binding site (G-site) [chemical binding]; other site 398579009888 dimer interface [polypeptide binding]; other site 398579009889 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 398579009890 dimer interface [polypeptide binding]; other site 398579009891 N-terminal domain interface [polypeptide binding]; other site 398579009892 active site 398579009893 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 398579009894 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 398579009895 guanine deaminase; Region: guan_deamin; TIGR02967 398579009896 active site 398579009897 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 398579009898 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 398579009899 SpoOM protein; Region: Spo0M; pfam07070 398579009900 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 398579009901 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 398579009902 active site pocket [active] 398579009903 BCCT family transporter; Region: BCCT; pfam02028 398579009904 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 398579009905 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398579009906 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398579009907 DNA-binding site [nucleotide binding]; DNA binding site 398579009908 FCD domain; Region: FCD; pfam07729 398579009909 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 398579009910 YcaO domain protein; Region: TIGR03549 398579009911 OsmC-like protein; Region: OsmC; pfam02566 398579009912 YcaO-like family; Region: YcaO; pfam02624 398579009913 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 398579009914 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 398579009915 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 398579009916 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 398579009917 Ribosome recycling factor; Region: RRF_GI; pfam12614 398579009918 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 398579009919 Integrase core domain; Region: rve; pfam00665 398579009920 Integrase core domain; Region: rve_3; pfam13683 398579009921 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 398579009922 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 398579009923 DNA-binding site [nucleotide binding]; DNA binding site 398579009924 RNA-binding motif; other site 398579009925 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 398579009926 Protein of unknown function (DUF3083); Region: DUF3083; pfam11281 398579009927 HAMP domain; Region: HAMP; pfam00672 398579009928 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398579009929 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398579009930 dimer interface [polypeptide binding]; other site 398579009931 putative CheW interface [polypeptide binding]; other site 398579009932 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579009933 metal binding site [ion binding]; metal-binding site 398579009934 active site 398579009935 I-site; other site 398579009936 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 398579009937 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 398579009938 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 398579009939 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398579009940 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398579009941 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 398579009942 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 398579009943 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 398579009944 transmembrane helices; other site 398579009945 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 398579009946 S-adenosylmethionine binding site [chemical binding]; other site 398579009947 Sulfatase; Region: Sulfatase; cl17466 398579009948 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 398579009949 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 398579009950 peptidase T-like protein; Region: PepT-like; TIGR01883 398579009951 metal binding site [ion binding]; metal-binding site 398579009952 putative dimer interface [polypeptide binding]; other site 398579009953 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 398579009954 catalytic motif [active] 398579009955 Zn binding site [ion binding]; other site 398579009956 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 398579009957 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 398579009958 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 398579009959 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12507 398579009960 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 398579009961 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 398579009962 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 398579009963 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 398579009964 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 398579009965 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 398579009966 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 398579009967 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 398579009968 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 398579009969 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 398579009970 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 398579009971 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 398579009972 glycine dehydrogenase; Provisional; Region: PRK05367 398579009973 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 398579009974 tetramer interface [polypeptide binding]; other site 398579009975 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579009976 catalytic residue [active] 398579009977 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 398579009978 tetramer interface [polypeptide binding]; other site 398579009979 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579009980 catalytic residue [active] 398579009981 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 398579009982 lipoyl attachment site [posttranslational modification]; other site 398579009983 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 398579009984 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 398579009985 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398579009986 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 398579009987 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 398579009988 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 398579009989 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 398579009990 Cell division protein ZapA; Region: ZapA; pfam05164 398579009991 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 398579009992 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 398579009993 Protein of unknown function (DUF1326); Region: DUF1326; pfam07040 398579009994 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 398579009995 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 398579009996 ligand binding site [chemical binding]; other site 398579009997 active site 398579009998 UGI interface [polypeptide binding]; other site 398579009999 catalytic site [active] 398579010000 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 398579010001 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398579010002 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 398579010003 DsbD alpha interface [polypeptide binding]; other site 398579010004 catalytic residues [active] 398579010005 PAS domain S-box; Region: sensory_box; TIGR00229 398579010006 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 398579010007 putative active site [active] 398579010008 heme pocket [chemical binding]; other site 398579010009 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 398579010010 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 398579010011 Walker A motif; other site 398579010012 ATP binding site [chemical binding]; other site 398579010013 Walker B motif; other site 398579010014 arginine finger; other site 398579010015 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 398579010016 4Fe-4S binding domain; Region: Fer4_5; pfam12801 398579010017 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 398579010018 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 398579010019 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 398579010020 acyl-activating enzyme (AAE) consensus motif; other site 398579010021 putative AMP binding site [chemical binding]; other site 398579010022 putative active site [active] 398579010023 putative CoA binding site [chemical binding]; other site 398579010024 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 398579010025 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398579010026 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398579010027 Walker A/P-loop; other site 398579010028 ATP binding site [chemical binding]; other site 398579010029 Q-loop/lid; other site 398579010030 ABC transporter signature motif; other site 398579010031 Walker B; other site 398579010032 D-loop; other site 398579010033 H-loop/switch region; other site 398579010034 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 398579010035 heme utilization protein HutZ; Region: heme_HutZ; TIGR04110 398579010036 putative heme utilization carrier protein HutX; Region: HutX; TIGR04108 398579010037 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 398579010038 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 398579010039 N-terminal plug; other site 398579010040 ligand-binding site [chemical binding]; other site 398579010041 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 398579010042 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 398579010043 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 398579010044 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 398579010045 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 398579010046 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 398579010047 putative hemin binding site; other site 398579010048 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 398579010049 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 398579010050 ABC-ATPase subunit interface; other site 398579010051 dimer interface [polypeptide binding]; other site 398579010052 putative PBP binding regions; other site 398579010053 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 398579010054 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 398579010055 Walker A/P-loop; other site 398579010056 ATP binding site [chemical binding]; other site 398579010057 Q-loop/lid; other site 398579010058 ABC transporter signature motif; other site 398579010059 Walker B; other site 398579010060 D-loop; other site 398579010061 H-loop/switch region; other site 398579010062 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398579010063 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398579010064 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 398579010065 RibD C-terminal domain; Region: RibD_C; cl17279 398579010066 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 398579010067 putative active site [active] 398579010068 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579010069 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579010070 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 398579010071 dimerization interface [polypeptide binding]; other site 398579010072 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 398579010073 Predicted membrane protein [Function unknown]; Region: COG4125 398579010074 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 398579010075 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 398579010076 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 398579010077 FeS/SAM binding site; other site 398579010078 Protein of unknown function (DUF2956); Region: DUF2956; pfam11169 398579010079 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 398579010080 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 398579010081 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 398579010082 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 398579010083 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 398579010084 molybdopterin cofactor binding site [chemical binding]; other site 398579010085 substrate binding site [chemical binding]; other site 398579010086 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 398579010087 molybdopterin cofactor binding site; other site 398579010088 chaperone protein TorD; Validated; Region: torD; PRK04976 398579010089 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 398579010090 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 398579010091 dimer interface [polypeptide binding]; other site 398579010092 phosphorylation site [posttranslational modification] 398579010093 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579010094 ATP binding site [chemical binding]; other site 398579010095 Mg2+ binding site [ion binding]; other site 398579010096 G-X-G motif; other site 398579010097 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579010098 active site 398579010099 phosphorylation site [posttranslational modification] 398579010100 intermolecular recognition site; other site 398579010101 dimerization interface [polypeptide binding]; other site 398579010102 Hpt domain; Region: Hpt; pfam01627 398579010103 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 398579010104 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 398579010105 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 398579010106 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579010107 active site 398579010108 phosphorylation site [posttranslational modification] 398579010109 intermolecular recognition site; other site 398579010110 dimerization interface [polypeptide binding]; other site 398579010111 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 398579010112 DNA binding site [nucleotide binding] 398579010113 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 398579010114 Ion transport protein; Region: Ion_trans; pfam00520 398579010115 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; pfam09904 398579010116 Bacterial PH domain; Region: DUF304; pfam03703 398579010117 Predicted membrane protein [Function unknown]; Region: COG3428 398579010118 Bacterial PH domain; Region: DUF304; pfam03703 398579010119 Bacterial PH domain; Region: DUF304; pfam03703 398579010120 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 398579010121 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 398579010122 Ligand Binding Site [chemical binding]; other site 398579010123 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 398579010124 Ligand Binding Site [chemical binding]; other site 398579010125 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 398579010126 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 398579010127 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 398579010128 NAD(P) binding site [chemical binding]; other site 398579010129 catalytic residues [active] 398579010130 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398579010131 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398579010132 PAS domain; Region: PAS; smart00091 398579010133 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 398579010134 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579010135 ATP binding site [chemical binding]; other site 398579010136 Mg2+ binding site [ion binding]; other site 398579010137 G-X-G motif; other site 398579010138 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398579010139 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579010140 active site 398579010141 phosphorylation site [posttranslational modification] 398579010142 intermolecular recognition site; other site 398579010143 dimerization interface [polypeptide binding]; other site 398579010144 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 398579010145 Walker A motif; other site 398579010146 ATP binding site [chemical binding]; other site 398579010147 Walker B motif; other site 398579010148 arginine finger; other site 398579010149 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398579010150 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 398579010151 FtsX-like permease family; Region: FtsX; pfam02687 398579010152 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 398579010153 FtsX-like permease family; Region: FtsX; pfam02687 398579010154 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398579010155 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398579010156 Walker A/P-loop; other site 398579010157 ATP binding site [chemical binding]; other site 398579010158 Q-loop/lid; other site 398579010159 ABC transporter signature motif; other site 398579010160 Walker B; other site 398579010161 D-loop; other site 398579010162 H-loop/switch region; other site 398579010163 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398579010164 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579010165 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398579010166 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 398579010167 trimer interface [polypeptide binding]; other site 398579010168 eyelet of channel; other site 398579010169 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 398579010170 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 398579010171 Walker A motif; other site 398579010172 ATP binding site [chemical binding]; other site 398579010173 Walker B motif; other site 398579010174 arginine finger; other site 398579010175 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 398579010176 L-aspartate oxidase; Provisional; Region: PRK06175 398579010177 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 398579010178 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 398579010179 active sites [active] 398579010180 tetramer interface [polypeptide binding]; other site 398579010181 MAPEG family; Region: MAPEG; cl09190 398579010182 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 398579010183 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 398579010184 SnoaL-like domain; Region: SnoaL_3; pfam13474 398579010185 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 398579010186 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 398579010187 cobalamin binding residues [chemical binding]; other site 398579010188 putative BtuC binding residues; other site 398579010189 dimer interface [polypeptide binding]; other site 398579010190 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 398579010191 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 398579010192 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 398579010193 homodimer interface [polypeptide binding]; other site 398579010194 Walker A motif; other site 398579010195 ATP binding site [chemical binding]; other site 398579010196 hydroxycobalamin binding site [chemical binding]; other site 398579010197 Walker B motif; other site 398579010198 cobyric acid synthase; Provisional; Region: PRK00784 398579010199 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 398579010200 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 398579010201 catalytic triad [active] 398579010202 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 398579010203 homotrimer interface [polypeptide binding]; other site 398579010204 Walker A motif; other site 398579010205 GTP binding site [chemical binding]; other site 398579010206 Walker B motif; other site 398579010207 cobalamin synthase; Reviewed; Region: cobS; PRK00235 398579010208 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 398579010209 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 398579010210 active site pocket [active] 398579010211 putative dimer interface [polypeptide binding]; other site 398579010212 putative cataytic base [active] 398579010213 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 398579010214 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 398579010215 ABC-ATPase subunit interface; other site 398579010216 dimer interface [polypeptide binding]; other site 398579010217 putative PBP binding regions; other site 398579010218 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 398579010219 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 398579010220 Walker A/P-loop; other site 398579010221 ATP binding site [chemical binding]; other site 398579010222 Q-loop/lid; other site 398579010223 ABC transporter signature motif; other site 398579010224 Walker B; other site 398579010225 D-loop; other site 398579010226 H-loop/switch region; other site 398579010227 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 398579010228 catalytic core [active] 398579010229 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 398579010230 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 398579010231 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 398579010232 substrate binding pocket [chemical binding]; other site 398579010233 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 398579010234 B12 binding site [chemical binding]; other site 398579010235 cobalt ligand [ion binding]; other site 398579010236 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 398579010237 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 398579010238 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 398579010239 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 398579010240 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 398579010241 glutathione-dependent formaldehyde-activating enzyme; Provisional; Region: PRK05417 398579010242 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 398579010243 Mechanosensitive ion channel porin domain; Region: MscS_porin; pfam12795 398579010244 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 398579010245 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 398579010246 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398579010247 Protein of unknown function (DUF465); Region: DUF465; pfam04325 398579010248 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 398579010249 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 398579010250 active site 398579010251 purine riboside binding site [chemical binding]; other site 398579010252 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 398579010253 RDD family; Region: RDD; pfam06271 398579010254 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398579010255 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 398579010256 substrate binding pocket [chemical binding]; other site 398579010257 membrane-bound complex binding site; other site 398579010258 hinge residues; other site 398579010259 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 398579010260 dimer interface [polypeptide binding]; other site 398579010261 conserved gate region; other site 398579010262 putative PBP binding loops; other site 398579010263 ABC-ATPase subunit interface; other site 398579010264 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398579010265 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 398579010266 Walker A/P-loop; other site 398579010267 ATP binding site [chemical binding]; other site 398579010268 Q-loop/lid; other site 398579010269 ABC transporter signature motif; other site 398579010270 Walker B; other site 398579010271 D-loop; other site 398579010272 H-loop/switch region; other site 398579010273 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579010274 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579010275 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 398579010276 dimerization interface [polypeptide binding]; other site 398579010277 putative effector binding pocket; other site 398579010278 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 398579010279 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 398579010280 NAD binding site [chemical binding]; other site 398579010281 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 398579010282 putative deacylase active site [active] 398579010283 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 398579010284 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 398579010285 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 398579010286 Nucleoside recognition; Region: Gate; pfam07670 398579010287 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 398579010288 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 398579010289 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 398579010290 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398579010291 Protein of unknown function (DUF805); Region: DUF805; pfam05656 398579010292 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 398579010293 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 398579010294 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 398579010295 active site 398579010296 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579010297 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579010298 metal binding site [ion binding]; metal-binding site 398579010299 active site 398579010300 I-site; other site 398579010301 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 398579010302 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398579010303 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 398579010304 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398579010305 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398579010306 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 398579010307 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 398579010308 putative substrate translocation pore; other site 398579010309 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 398579010310 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 398579010311 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398579010312 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579010313 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579010314 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579010315 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 398579010316 dimerization interface [polypeptide binding]; other site 398579010317 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 398579010318 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398579010319 Coenzyme A binding pocket [chemical binding]; other site 398579010320 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 398579010321 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 398579010322 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 398579010323 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 398579010324 Predicted permeases [General function prediction only]; Region: COG0701 398579010325 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579010326 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579010327 The C-terminal substrate binding domain of LysR-type transcriptional regulator TdcA, which is involved in the degradation of L-serine and L-threonine, contains the type 2 periplasmic binding fold; Region: PBP2_TdcA; cd08418 398579010328 putative substrate binding pocket [chemical binding]; other site 398579010329 putative dimerization interface [polypeptide binding]; other site 398579010330 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579010331 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579010332 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 398579010333 dimerization interface [polypeptide binding]; other site 398579010334 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 398579010335 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 398579010336 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 398579010337 active site 398579010338 catalytic triad [active] 398579010339 PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from...; Region: PA_subtilisin_like; cd02120 398579010340 PA/protease or protease-like domain interface [polypeptide binding]; other site 398579010341 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 398579010342 catalytic residues [active] 398579010343 Domain of unknown function; Region: DUF331; pfam03889 398579010344 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 398579010345 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 398579010346 catalytic site [active] 398579010347 putative active site [active] 398579010348 putative substrate binding site [chemical binding]; other site 398579010349 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 398579010350 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 398579010351 DNA binding site [nucleotide binding] 398579010352 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 398579010353 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 398579010354 catalytic residues [active] 398579010355 hinge region; other site 398579010356 alpha helical domain; other site 398579010357 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398579010358 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 398579010359 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 398579010360 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 398579010361 GAF domain; Region: GAF; pfam01590 398579010362 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 398579010363 Walker A motif; other site 398579010364 ATP binding site [chemical binding]; other site 398579010365 Walker B motif; other site 398579010366 arginine finger; other site 398579010367 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 398579010368 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 398579010369 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 398579010370 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 398579010371 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 398579010372 Mg binding site [ion binding]; other site 398579010373 nucleotide binding site [chemical binding]; other site 398579010374 putative protofilament interface [polypeptide binding]; other site 398579010375 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 398579010376 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 398579010377 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398579010378 catalytic residue [active] 398579010379 permease DsdX; Provisional; Region: PRK09921 398579010380 gluconate transporter; Region: gntP; TIGR00791 398579010381 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 398579010382 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579010383 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 398579010384 dimerization interface [polypeptide binding]; other site 398579010385 substrate binding pocket [chemical binding]; other site 398579010386 Predicted ATPase [General function prediction only]; Region: COG1485 398579010387 phage exclusion protein Lit; Provisional; Region: PRK09672 398579010388 Peptidase U49; Region: Peptidase_U49; pfam10463 398579010389 Integrin alpha; Region: Integrin_alpha2; pfam08441 398579010390 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 398579010391 non-specific DNA binding site [nucleotide binding]; other site 398579010392 salt bridge; other site 398579010393 sequence-specific DNA binding site [nucleotide binding]; other site 398579010394 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 398579010395 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 398579010396 ATP binding site [chemical binding]; other site 398579010397 putative Mg++ binding site [ion binding]; other site 398579010398 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 398579010399 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 398579010400 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 398579010401 active site 398579010402 catalytic residues [active] 398579010403 DNA binding site [nucleotide binding] 398579010404 Int/Topo IB signature motif; other site 398579010405 Predicted ATPase [General function prediction only]; Region: COG1485 398579010406 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398579010407 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398579010408 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 398579010409 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 398579010410 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 398579010411 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 398579010412 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 398579010413 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 398579010414 metal binding triad; other site 398579010415 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 398579010416 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 398579010417 metal binding triad; other site 398579010418 spermidine synthase; Provisional; Region: PRK03612 398579010419 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 398579010420 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 398579010421 PspA/IM30 family; Region: PspA_IM30; pfam04012 398579010422 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 398579010423 Ion transport protein; Region: Ion_trans; pfam00520 398579010424 Ion channel; Region: Ion_trans_2; pfam07885 398579010425 Uncharacterized conserved protein [Function unknown]; Region: COG3025 398579010426 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 398579010427 putative active site [active] 398579010428 putative metal binding residues [ion binding]; other site 398579010429 signature motif; other site 398579010430 putative triphosphate binding site [ion binding]; other site 398579010431 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 398579010432 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 398579010433 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 398579010434 Bacterial SH3 domain homologues; Region: SH3b; smart00287 398579010435 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 398579010436 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 398579010437 Proline dehydrogenase; Region: Pro_dh; pfam01619 398579010438 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 398579010439 Glutamate binding site [chemical binding]; other site 398579010440 NAD binding site [chemical binding]; other site 398579010441 catalytic residues [active] 398579010442 Cache domain; Region: Cache_1; pfam02743 398579010443 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 398579010444 dimerization interface [polypeptide binding]; other site 398579010445 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398579010446 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398579010447 dimer interface [polypeptide binding]; other site 398579010448 putative CheW interface [polypeptide binding]; other site 398579010449 Cache domain; Region: Cache_1; pfam02743 398579010450 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 398579010451 dimerization interface [polypeptide binding]; other site 398579010452 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398579010453 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398579010454 dimer interface [polypeptide binding]; other site 398579010455 putative CheW interface [polypeptide binding]; other site 398579010456 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 398579010457 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 398579010458 Walker A/P-loop; other site 398579010459 ATP binding site [chemical binding]; other site 398579010460 Q-loop/lid; other site 398579010461 ABC transporter signature motif; other site 398579010462 Walker B; other site 398579010463 D-loop; other site 398579010464 H-loop/switch region; other site 398579010465 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 398579010466 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398579010467 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398579010468 Walker A/P-loop; other site 398579010469 ATP binding site [chemical binding]; other site 398579010470 Q-loop/lid; other site 398579010471 ABC transporter signature motif; other site 398579010472 Walker B; other site 398579010473 D-loop; other site 398579010474 H-loop/switch region; other site 398579010475 Protein of unknown function (DUF3622); Region: DUF3622; pfam12286 398579010476 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 398579010477 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 398579010478 DEAD-like helicases superfamily; Region: DEXDc; smart00487 398579010479 ATP binding site [chemical binding]; other site 398579010480 Mg++ binding site [ion binding]; other site 398579010481 motif III; other site 398579010482 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 398579010483 nucleotide binding region [chemical binding]; other site 398579010484 ATP-binding site [chemical binding]; other site 398579010485 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 398579010486 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 398579010487 ATP binding site [chemical binding]; other site 398579010488 Mg++ binding site [ion binding]; other site 398579010489 motif III; other site 398579010490 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 398579010491 nucleotide binding region [chemical binding]; other site 398579010492 ATP-binding site [chemical binding]; other site 398579010493 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 398579010494 putative RNA binding site [nucleotide binding]; other site 398579010495 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 398579010496 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 398579010497 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 398579010498 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398579010499 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398579010500 ABC transporter; Region: ABC_tran_2; pfam12848 398579010501 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398579010502 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 398579010503 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 398579010504 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398579010505 putative hydrolase; Provisional; Region: PRK10985 398579010506 Uncharacterized protein family (UPF0270); Region: UPF0270; pfam06794 398579010507 phosphoribulokinase; Provisional; Region: PRK15453 398579010508 active site 398579010509 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 398579010510 Sel1-like repeats; Region: SEL1; smart00671 398579010511 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 398579010512 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 398579010513 ligand binding site [chemical binding]; other site 398579010514 flexible hinge region; other site 398579010515 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 398579010516 putative switch regulator; other site 398579010517 non-specific DNA interactions [nucleotide binding]; other site 398579010518 DNA binding site [nucleotide binding] 398579010519 sequence specific DNA binding site [nucleotide binding]; other site 398579010520 putative cAMP binding site [chemical binding]; other site 398579010521 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 398579010522 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398579010523 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579010524 active site 398579010525 phosphorylation site [posttranslational modification] 398579010526 intermolecular recognition site; other site 398579010527 dimerization interface [polypeptide binding]; other site 398579010528 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 398579010529 DNA binding site [nucleotide binding] 398579010530 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398579010531 HAMP domain; Region: HAMP; pfam00672 398579010532 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 398579010533 dimer interface [polypeptide binding]; other site 398579010534 phosphorylation site [posttranslational modification] 398579010535 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579010536 ATP binding site [chemical binding]; other site 398579010537 Mg2+ binding site [ion binding]; other site 398579010538 G-X-G motif; other site 398579010539 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 398579010540 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 398579010541 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 398579010542 NAD(P) binding site [chemical binding]; other site 398579010543 catalytic residues [active] 398579010544 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 398579010545 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 398579010546 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 398579010547 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 398579010548 inhibitor-cofactor binding pocket; inhibition site 398579010549 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579010550 catalytic residue [active] 398579010551 HDOD domain; Region: HDOD; pfam08668 398579010552 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 398579010553 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398579010554 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 398579010555 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 398579010556 glutamine binding [chemical binding]; other site 398579010557 catalytic triad [active] 398579010558 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 398579010559 TPR motif; other site 398579010560 binding surface 398579010561 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 398579010562 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 398579010563 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 398579010564 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 398579010565 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 398579010566 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 398579010567 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 398579010568 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 398579010569 Walker A/P-loop; other site 398579010570 ATP binding site [chemical binding]; other site 398579010571 Q-loop/lid; other site 398579010572 ABC transporter signature motif; other site 398579010573 Walker B; other site 398579010574 D-loop; other site 398579010575 H-loop/switch region; other site 398579010576 DEAD-like helicases superfamily; Region: DEXDc; smart00487 398579010577 NTPase; Region: NTPase_1; pfam03266 398579010578 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 398579010579 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 398579010580 ABC-ATPase subunit interface; other site 398579010581 dimer interface [polypeptide binding]; other site 398579010582 putative PBP binding regions; other site 398579010583 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 398579010584 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 398579010585 intersubunit interface [polypeptide binding]; other site 398579010586 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 398579010587 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 398579010588 N-terminal plug; other site 398579010589 ligand-binding site [chemical binding]; other site 398579010590 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 398579010591 stringent starvation protein A; Provisional; Region: sspA; PRK09481 398579010592 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 398579010593 C-terminal domain interface [polypeptide binding]; other site 398579010594 putative GSH binding site (G-site) [chemical binding]; other site 398579010595 dimer interface [polypeptide binding]; other site 398579010596 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 398579010597 dimer interface [polypeptide binding]; other site 398579010598 N-terminal domain interface [polypeptide binding]; other site 398579010599 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 398579010600 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 398579010601 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 398579010602 Qi binding site; other site 398579010603 intrachain domain interface; other site 398579010604 interchain domain interface [polypeptide binding]; other site 398579010605 heme bH binding site [chemical binding]; other site 398579010606 heme bL binding site [chemical binding]; other site 398579010607 Qo binding site; other site 398579010608 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 398579010609 interchain domain interface [polypeptide binding]; other site 398579010610 intrachain domain interface; other site 398579010611 Qi binding site; other site 398579010612 Qo binding site; other site 398579010613 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 398579010614 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 398579010615 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 398579010616 [2Fe-2S] cluster binding site [ion binding]; other site 398579010617 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 398579010618 FtsH protease regulator HflC; Provisional; Region: PRK11029 398579010619 FtsH protease regulator HflK; Provisional; Region: PRK10930 398579010620 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 398579010621 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 398579010622 GTPase HflX; Provisional; Region: PRK11058 398579010623 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 398579010624 HflX GTPase family; Region: HflX; cd01878 398579010625 G1 box; other site 398579010626 GTP/Mg2+ binding site [chemical binding]; other site 398579010627 Switch I region; other site 398579010628 G2 box; other site 398579010629 G3 box; other site 398579010630 Switch II region; other site 398579010631 G4 box; other site 398579010632 G5 box; other site 398579010633 bacterial Hfq-like; Region: Hfq; cd01716 398579010634 hexamer interface [polypeptide binding]; other site 398579010635 Sm1 motif; other site 398579010636 RNA binding site [nucleotide binding]; other site 398579010637 Sm2 motif; other site 398579010638 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 398579010639 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 398579010640 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 398579010641 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579010642 ATP binding site [chemical binding]; other site 398579010643 Mg2+ binding site [ion binding]; other site 398579010644 G-X-G motif; other site 398579010645 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 398579010646 ATP binding site [chemical binding]; other site 398579010647 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 398579010648 AMIN domain; Region: AMIN; pfam11741 398579010649 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 398579010650 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 398579010651 active site 398579010652 metal binding site [ion binding]; metal-binding site 398579010653 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398579010654 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 398579010655 putative carbohydrate kinase; Provisional; Region: PRK10565 398579010656 Uncharacterized conserved protein [Function unknown]; Region: COG0062 398579010657 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 398579010658 putative substrate binding site [chemical binding]; other site 398579010659 putative ATP binding site [chemical binding]; other site 398579010660 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 398579010661 catalytic site [active] 398579010662 putative active site [active] 398579010663 putative substrate binding site [chemical binding]; other site 398579010664 dimer interface [polypeptide binding]; other site 398579010665 GTPase RsgA; Reviewed; Region: PRK12288 398579010666 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 398579010667 RNA binding site [nucleotide binding]; other site 398579010668 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 398579010669 GTPase/Zn-binding domain interface [polypeptide binding]; other site 398579010670 GTP/Mg2+ binding site [chemical binding]; other site 398579010671 G4 box; other site 398579010672 G5 box; other site 398579010673 G1 box; other site 398579010674 Switch I region; other site 398579010675 G2 box; other site 398579010676 G3 box; other site 398579010677 Switch II region; other site 398579010678 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 398579010679 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 398579010680 hypothetical protein; Provisional; Region: PRK11281 398579010681 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 398579010682 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398579010683 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 398579010684 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 398579010685 active site 398579010686 catalytic site [active] 398579010687 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 398579010688 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 398579010689 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 398579010690 NAD binding site [chemical binding]; other site 398579010691 ligand binding site [chemical binding]; other site 398579010692 catalytic site [active] 398579010693 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 398579010694 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 398579010695 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 398579010696 CAP-like domain; other site 398579010697 active site 398579010698 primary dimer interface [polypeptide binding]; other site 398579010699 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 398579010700 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 398579010701 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579010702 ATP binding site [chemical binding]; other site 398579010703 Mg2+ binding site [ion binding]; other site 398579010704 G-X-G motif; other site 398579010705 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 398579010706 anchoring element; other site 398579010707 dimer interface [polypeptide binding]; other site 398579010708 ATP binding site [chemical binding]; other site 398579010709 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 398579010710 active site 398579010711 metal binding site [ion binding]; metal-binding site 398579010712 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 398579010713 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 398579010714 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398579010715 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 398579010716 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398579010717 active site 398579010718 metal binding site [ion binding]; metal-binding site 398579010719 hexamer interface [polypeptide binding]; other site 398579010720 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 398579010721 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 398579010722 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 398579010723 dimer interface [polypeptide binding]; other site 398579010724 ADP-ribose binding site [chemical binding]; other site 398579010725 active site 398579010726 nudix motif; other site 398579010727 metal binding site [ion binding]; metal-binding site 398579010728 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 398579010729 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 398579010730 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 398579010731 Protein of unknown function (DUF461); Region: DUF461; pfam04314 398579010732 enoyl-CoA hydratase; Provisional; Region: PRK06688 398579010733 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 398579010734 substrate binding site [chemical binding]; other site 398579010735 oxyanion hole (OAH) forming residues; other site 398579010736 trimer interface [polypeptide binding]; other site 398579010737 PspC domain; Region: PspC; pfam04024 398579010738 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 398579010739 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 398579010740 FMN binding site [chemical binding]; other site 398579010741 active site 398579010742 catalytic residues [active] 398579010743 substrate binding site [chemical binding]; other site 398579010744 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579010745 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579010746 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 398579010747 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579010748 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 398579010749 dimerization interface [polypeptide binding]; other site 398579010750 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 398579010751 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 398579010752 heme-binding residues [chemical binding]; other site 398579010753 FMN-binding domain; Region: FMN_bind; pfam04205 398579010754 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 398579010755 L-aspartate oxidase; Provisional; Region: PRK06175 398579010756 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 398579010757 active sites [active] 398579010758 tetramer interface [polypeptide binding]; other site 398579010759 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398579010760 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 398579010761 Mg2+ binding site [ion binding]; other site 398579010762 G-X-G motif; other site 398579010763 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398579010764 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579010765 active site 398579010766 phosphorylation site [posttranslational modification] 398579010767 intermolecular recognition site; other site 398579010768 dimerization interface [polypeptide binding]; other site 398579010769 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 398579010770 DNA binding site [nucleotide binding] 398579010771 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398579010772 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 398579010773 dimerization interface [polypeptide binding]; other site 398579010774 DNA binding residues [nucleotide binding] 398579010775 Surface antigen; Region: Bac_surface_Ag; pfam01103 398579010776 alanine racemase; Reviewed; Region: alr; PRK00053 398579010777 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 398579010778 active site 398579010779 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398579010780 substrate binding site [chemical binding]; other site 398579010781 catalytic residues [active] 398579010782 dimer interface [polypeptide binding]; other site 398579010783 replicative DNA helicase; Provisional; Region: PRK08840 398579010784 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 398579010785 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 398579010786 Walker A motif; other site 398579010787 ATP binding site [chemical binding]; other site 398579010788 Walker B motif; other site 398579010789 DNA binding loops [nucleotide binding] 398579010790 Peptidase S46; Region: Peptidase_S46; pfam10459 398579010791 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 398579010792 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 398579010793 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 398579010794 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 398579010795 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 398579010796 primosomal replication protein N; Provisional; Region: PRK02801 398579010797 generic binding surface II; other site 398579010798 generic binding surface I; other site 398579010799 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 398579010800 Protein of unknown function, DUF481; Region: DUF481; pfam04338 398579010801 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 398579010802 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398579010803 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 398579010804 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 398579010805 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 398579010806 exoribonuclease R; Provisional; Region: PRK11642 398579010807 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 398579010808 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 398579010809 RNB domain; Region: RNB; pfam00773 398579010810 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 398579010811 RNA binding site [nucleotide binding]; other site 398579010812 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 398579010813 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 398579010814 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 398579010815 GDP-binding site [chemical binding]; other site 398579010816 ACT binding site; other site 398579010817 IMP binding site; other site 398579010818 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 398579010819 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 398579010820 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 398579010821 23S rRNA interface [nucleotide binding]; other site 398579010822 L3 interface [polypeptide binding]; other site 398579010823 Predicted ATPase [General function prediction only]; Region: COG1485 398579010824 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 398579010825 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 398579010826 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 398579010827 protein binding site [polypeptide binding]; other site 398579010828 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 398579010829 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 398579010830 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 398579010831 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 398579010832 protein binding site [polypeptide binding]; other site 398579010833 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 398579010834 Response regulator receiver domain; Region: Response_reg; pfam00072 398579010835 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579010836 active site 398579010837 phosphorylation site [posttranslational modification] 398579010838 intermolecular recognition site; other site 398579010839 dimerization interface [polypeptide binding]; other site 398579010840 Helix-turn-helix domain; Region: HTH_20; pfam12840 398579010841 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 398579010842 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 398579010843 dimer interface [polypeptide binding]; other site 398579010844 phosphorylation site [posttranslational modification] 398579010845 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579010846 ATP binding site [chemical binding]; other site 398579010847 Mg2+ binding site [ion binding]; other site 398579010848 G-X-G motif; other site 398579010849 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 398579010850 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 398579010851 hinge; other site 398579010852 active site 398579010853 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 398579010854 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 398579010855 anti sigma factor interaction site; other site 398579010856 regulatory phosphorylation site [posttranslational modification]; other site 398579010857 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 398579010858 mce related protein; Region: MCE; pfam02470 398579010859 conserved hypothetical integral membrane protein; Region: TIGR00056 398579010860 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 398579010861 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 398579010862 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 398579010863 Walker A/P-loop; other site 398579010864 ATP binding site [chemical binding]; other site 398579010865 Q-loop/lid; other site 398579010866 ABC transporter signature motif; other site 398579010867 Walker B; other site 398579010868 D-loop; other site 398579010869 H-loop/switch region; other site 398579010870 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 398579010871 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 398579010872 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 398579010873 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 398579010874 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 398579010875 putative active site [active] 398579010876 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 398579010877 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 398579010878 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 398579010879 active site 398579010880 motif I; other site 398579010881 motif II; other site 398579010882 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 398579010883 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 398579010884 OstA-like protein; Region: OstA; cl00844 398579010885 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 398579010886 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 398579010887 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 398579010888 Walker A/P-loop; other site 398579010889 ATP binding site [chemical binding]; other site 398579010890 Q-loop/lid; other site 398579010891 ABC transporter signature motif; other site 398579010892 Walker B; other site 398579010893 D-loop; other site 398579010894 H-loop/switch region; other site 398579010895 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 398579010896 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 398579010897 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 398579010898 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 398579010899 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 398579010900 30S subunit binding site; other site 398579010901 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 398579010902 active site 398579010903 phosphorylation site [posttranslational modification] 398579010904 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 398579010905 dimerization domain swap beta strand [polypeptide binding]; other site 398579010906 regulatory protein interface [polypeptide binding]; other site 398579010907 active site 398579010908 regulatory phosphorylation site [posttranslational modification]; other site 398579010909 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 398579010910 MgtE intracellular N domain; Region: MgtE_N; smart00924 398579010911 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 398579010912 Divalent cation transporter; Region: MgtE; cl00786 398579010913 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398579010914 molybdate ABC transporter periplasmic molybdate-binding protein; Provisional; Region: PRK03537 398579010915 putative outer membrane lipoprotein; Provisional; Region: PRK10510 398579010916 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398579010917 ligand binding site [chemical binding]; other site 398579010918 Family description; Region: VCBS; pfam13517 398579010919 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 398579010920 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 398579010921 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 398579010922 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 398579010923 Ligand binding site; other site 398579010924 Putative Catalytic site; other site 398579010925 DXD motif; other site 398579010926 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398579010927 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579010928 active site 398579010929 phosphorylation site [posttranslational modification] 398579010930 intermolecular recognition site; other site 398579010931 dimerization interface [polypeptide binding]; other site 398579010932 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 398579010933 DNA binding site [nucleotide binding] 398579010934 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398579010935 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 398579010936 dimer interface [polypeptide binding]; other site 398579010937 phosphorylation site [posttranslational modification] 398579010938 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579010939 ATP binding site [chemical binding]; other site 398579010940 Mg2+ binding site [ion binding]; other site 398579010941 G-X-G motif; other site 398579010942 PGAP1-like protein; Region: PGAP1; pfam07819 398579010943 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 398579010944 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 398579010945 putative RNA binding site [nucleotide binding]; other site 398579010946 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 398579010947 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398579010948 putative substrate translocation pore; other site 398579010949 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 398579010950 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 398579010951 S-adenosylmethionine binding site [chemical binding]; other site 398579010952 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 398579010953 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 398579010954 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; cl17257 398579010955 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 398579010956 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398579010957 Walker A/P-loop; other site 398579010958 ATP binding site [chemical binding]; other site 398579010959 Q-loop/lid; other site 398579010960 ABC transporter signature motif; other site 398579010961 Walker B; other site 398579010962 D-loop; other site 398579010963 H-loop/switch region; other site 398579010964 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 398579010965 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398579010966 Walker A/P-loop; other site 398579010967 ATP binding site [chemical binding]; other site 398579010968 Q-loop/lid; other site 398579010969 ABC transporter signature motif; other site 398579010970 Walker B; other site 398579010971 D-loop; other site 398579010972 H-loop/switch region; other site 398579010973 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 398579010974 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 398579010975 putative PBP binding loops; other site 398579010976 ABC-ATPase subunit interface; other site 398579010977 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 398579010978 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 398579010979 dimer interface [polypeptide binding]; other site 398579010980 conserved gate region; other site 398579010981 putative PBP binding loops; other site 398579010982 ABC-ATPase subunit interface; other site 398579010983 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 398579010984 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 398579010985 nickel responsive regulator; Provisional; Region: PRK00630 398579010986 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 398579010987 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 398579010988 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 398579010989 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 398579010990 substrate binding site [chemical binding]; other site 398579010991 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 398579010992 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 398579010993 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398579010994 catalytic residue [active] 398579010995 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579010996 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579010997 metal binding site [ion binding]; metal-binding site 398579010998 active site 398579010999 I-site; other site 398579011000 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 398579011001 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398579011002 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 398579011003 substrate binding pocket [chemical binding]; other site 398579011004 membrane-bound complex binding site; other site 398579011005 hinge residues; other site 398579011006 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 398579011007 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398579011008 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398579011009 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 398579011010 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398579011011 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 398579011012 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 398579011013 iron binding site [ion binding]; other site 398579011014 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 398579011015 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 398579011016 dimer interface [polypeptide binding]; other site 398579011017 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579011018 catalytic residue [active] 398579011019 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 398579011020 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 398579011021 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398579011022 homodimer interface [polypeptide binding]; other site 398579011023 catalytic residue [active] 398579011024 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 398579011025 GH18 domain of Chitinase D (ChiD). ChiD, a chitinase found in Bacillus circulans, hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine in chitin and chitodextrins. The domain architecture of ChiD includes a catalytic glycosyl hydrolase family 18; Region: GH18_chitinase_D-like; cd02871 398579011026 putative active site [active] 398579011027 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 398579011028 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 398579011029 aromatic chitin/cellulose binding site residues [chemical binding]; other site 398579011030 chitin-binding domain of Chi A1-like proteins; Region: ChiA1_BD; cd12214 398579011031 multidrug resistance protein MdtN; Provisional; Region: PRK10476 398579011032 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398579011033 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579011034 Inhibitor of apoptosis-promoting Bax1; Region: Bax1-I; pfam01027 398579011035 Protein of unknown function (DUF2999); Region: DUF2999; pfam11212 398579011036 Glycosyl hydrolases family 39; Region: Glyco_hydro_39; pfam01229 398579011037 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 398579011038 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 398579011039 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 398579011040 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 398579011041 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 398579011042 Transporter associated domain; Region: CorC_HlyC; smart01091 398579011043 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 398579011044 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 398579011045 Surface antigen; Region: Bac_surface_Ag; pfam01103 398579011046 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398579011047 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 398579011048 substrate binding pocket [chemical binding]; other site 398579011049 membrane-bound complex binding site; other site 398579011050 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 398579011051 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398579011052 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 398579011053 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 398579011054 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 398579011055 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 398579011056 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 398579011057 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 398579011058 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 398579011059 Cache domain; Region: Cache_1; pfam02743 398579011060 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398579011061 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398579011062 dimer interface [polypeptide binding]; other site 398579011063 putative CheW interface [polypeptide binding]; other site 398579011064 BCCT family transporter; Region: BCCT; pfam02028 398579011065 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 398579011066 ACT domain; Region: ACT_6; pfam13740 398579011067 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 398579011068 2',3'-cyclic-nucleotide 2'-phosphodiesterase; Region: CycNucDiestase; TIGR01390 398579011069 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 398579011070 active site 398579011071 metal binding site [ion binding]; metal-binding site 398579011072 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 398579011073 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 398579011074 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 398579011075 DNA-binding site [nucleotide binding]; DNA binding site 398579011076 RNA-binding motif; other site 398579011077 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 398579011078 Domain of unknown function DUF1829; Region: DUF1829; pfam08862 398579011079 Nuclease-related domain; Region: NERD; pfam08378 398579011080 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 398579011081 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 398579011082 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 398579011083 ring oligomerisation interface [polypeptide binding]; other site 398579011084 ATP/Mg binding site [chemical binding]; other site 398579011085 stacking interactions; other site 398579011086 hinge regions; other site 398579011087 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 398579011088 oligomerisation interface [polypeptide binding]; other site 398579011089 mobile loop; other site 398579011090 roof hairpin; other site 398579011091 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 398579011092 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 398579011093 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 398579011094 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 398579011095 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 398579011096 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 398579011097 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579011098 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579011099 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 398579011100 putative effector binding pocket; other site 398579011101 dimerization interface [polypeptide binding]; other site 398579011102 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398579011103 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398579011104 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579011105 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398579011106 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 398579011107 active site 398579011108 Cache domain; Region: Cache_1; pfam02743 398579011109 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 398579011110 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398579011111 putative active site [active] 398579011112 heme pocket [chemical binding]; other site 398579011113 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 398579011114 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398579011115 putative active site [active] 398579011116 heme pocket [chemical binding]; other site 398579011117 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 398579011118 dimer interface [polypeptide binding]; other site 398579011119 phosphorylation site [posttranslational modification] 398579011120 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579011121 ATP binding site [chemical binding]; other site 398579011122 Mg2+ binding site [ion binding]; other site 398579011123 G-X-G motif; other site 398579011124 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579011125 Response regulator receiver domain; Region: Response_reg; pfam00072 398579011126 active site 398579011127 phosphorylation site [posttranslational modification] 398579011128 intermolecular recognition site; other site 398579011129 dimerization interface [polypeptide binding]; other site 398579011130 Response regulator receiver domain; Region: Response_reg; pfam00072 398579011131 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579011132 active site 398579011133 phosphorylation site [posttranslational modification] 398579011134 intermolecular recognition site; other site 398579011135 dimerization interface [polypeptide binding]; other site 398579011136 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 398579011137 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 398579011138 putative active site [active] 398579011139 PhoH-like protein; Region: PhoH; pfam02562 398579011140 ATP-dependent helicase HepA; Validated; Region: PRK04914 398579011141 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 398579011142 ATP binding site [chemical binding]; other site 398579011143 putative Mg++ binding site [ion binding]; other site 398579011144 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 398579011145 nucleotide binding region [chemical binding]; other site 398579011146 ATP-binding site [chemical binding]; other site 398579011147 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 398579011148 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 398579011149 Integrase core domain; Region: rve; pfam00665 398579011150 Integrase core domain; Region: rve_3; pfam13683 398579011151 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 398579011152 enoyl-CoA hydratase; Provisional; Region: PRK07509 398579011153 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 398579011154 substrate binding site [chemical binding]; other site 398579011155 oxyanion hole (OAH) forming residues; other site 398579011156 trimer interface [polypeptide binding]; other site 398579011157 Response regulator receiver domain; Region: Response_reg; pfam00072 398579011158 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579011159 active site 398579011160 phosphorylation site [posttranslational modification] 398579011161 intermolecular recognition site; other site 398579011162 dimerization interface [polypeptide binding]; other site 398579011163 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 398579011164 PAS fold; Region: PAS; pfam00989 398579011165 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579011166 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579011167 metal binding site [ion binding]; metal-binding site 398579011168 active site 398579011169 I-site; other site 398579011170 RNase E inhibitor protein; Provisional; Region: PRK11191 398579011171 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 398579011172 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 398579011173 putative acyl-acceptor binding pocket; other site 398579011174 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 398579011175 Periplasmic binding protein TroA_c. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_c; cd01145 398579011176 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 398579011177 putative ligand binding site [chemical binding]; other site 398579011178 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 398579011179 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398579011180 formate--tetrahydrofolate ligase; Provisional; Region: PRK13506 398579011181 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 398579011182 Potassium binding sites [ion binding]; other site 398579011183 Cesium cation binding sites [ion binding]; other site 398579011184 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 398579011185 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 398579011186 active site 2 [active] 398579011187 active site 1 [active] 398579011188 TraB family; Region: TraB; pfam01963 398579011189 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 398579011190 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 398579011191 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579011192 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579011193 metal binding site [ion binding]; metal-binding site 398579011194 active site 398579011195 I-site; other site 398579011196 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 398579011197 Protein of unknown function (DUF4240); Region: DUF4240; pfam14024 398579011198 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 398579011199 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579011200 active site 398579011201 phosphorylation site [posttranslational modification] 398579011202 intermolecular recognition site; other site 398579011203 dimerization interface [polypeptide binding]; other site 398579011204 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579011205 active site 398579011206 phosphorylation site [posttranslational modification] 398579011207 intermolecular recognition site; other site 398579011208 dimerization interface [polypeptide binding]; other site 398579011209 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 398579011210 IHF dimer interface [polypeptide binding]; other site 398579011211 IHF - DNA interface [nucleotide binding]; other site 398579011212 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 398579011213 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 398579011214 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 398579011215 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 398579011216 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 398579011217 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 398579011218 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 398579011219 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 398579011220 arsenical-resistance protein; Region: acr3; TIGR00832 398579011221 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 398579011222 dimerization interface [polypeptide binding]; other site 398579011223 putative DNA binding site [nucleotide binding]; other site 398579011224 putative Zn2+ binding site [ion binding]; other site 398579011225 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 398579011226 peptidase PmbA; Provisional; Region: PRK11040 398579011227 hypothetical protein; Provisional; Region: PRK05255 398579011228 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 398579011229 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 398579011230 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 398579011231 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 398579011232 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 398579011233 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 398579011234 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 398579011235 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398579011236 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579011237 Outer membrane efflux protein; Region: OEP; pfam02321 398579011238 Outer membrane efflux protein; Region: OEP; pfam02321 398579011239 protease TldD; Provisional; Region: tldD; PRK10735 398579011240 nitrilase; Region: PLN02798 398579011241 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 398579011242 putative active site [active] 398579011243 catalytic triad [active] 398579011244 dimer interface [polypeptide binding]; other site 398579011245 TIGR02099 family protein; Region: TIGR02099 398579011246 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 398579011247 ribonuclease G; Provisional; Region: PRK11712 398579011248 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 398579011249 homodimer interface [polypeptide binding]; other site 398579011250 oligonucleotide binding site [chemical binding]; other site 398579011251 Maf-like protein; Region: Maf; pfam02545 398579011252 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 398579011253 active site 398579011254 dimer interface [polypeptide binding]; other site 398579011255 rod shape-determining protein MreD; Region: MreD; cl01087 398579011256 rod shape-determining protein MreC; Provisional; Region: PRK13922 398579011257 rod shape-determining protein MreC; Region: MreC; pfam04085 398579011258 rod shape-determining protein MreB; Provisional; Region: PRK13927 398579011259 MreB and similar proteins; Region: MreB_like; cd10225 398579011260 nucleotide binding site [chemical binding]; other site 398579011261 Mg binding site [ion binding]; other site 398579011262 putative protofilament interaction site [polypeptide binding]; other site 398579011263 RodZ interaction site [polypeptide binding]; other site 398579011264 PA14 domain; Region: PA14; cl08459 398579011265 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 398579011266 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 398579011267 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 398579011268 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398579011269 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398579011270 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 398579011271 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 398579011272 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 398579011273 Walker A motif; other site 398579011274 ATP binding site [chemical binding]; other site 398579011275 Walker B motif; other site 398579011276 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 398579011277 TPR motif; other site 398579011278 binding surface 398579011279 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 398579011280 binding surface 398579011281 TPR motif; other site 398579011282 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 398579011283 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 398579011284 Walker A motif; other site 398579011285 ATP binding site [chemical binding]; other site 398579011286 Walker B motif; other site 398579011287 arginine finger; other site 398579011288 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 398579011289 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 398579011290 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398579011291 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 398579011292 regulatory protein CsrD; Provisional; Region: PRK11059 398579011293 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579011294 metal binding site [ion binding]; metal-binding site 398579011295 active site 398579011296 I-site; other site 398579011297 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 398579011298 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 398579011299 Malic enzyme, N-terminal domain; Region: malic; pfam00390 398579011300 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 398579011301 putative NAD(P) binding site [chemical binding]; other site 398579011302 Staphylococcal nuclease homologues; Region: SNc; smart00318 398579011303 Catalytic site; other site 398579011304 Staphylococcal nuclease homologue; Region: SNase; pfam00565 398579011305 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 398579011306 FimV N-terminal domain; Region: FimV_core; TIGR03505 398579011307 primosome assembly protein PriA; Validated; Region: PRK05580 398579011308 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 398579011309 ATP binding site [chemical binding]; other site 398579011310 putative Mg++ binding site [ion binding]; other site 398579011311 helicase superfamily c-terminal domain; Region: HELICc; smart00490 398579011312 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 398579011313 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 398579011314 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 398579011315 active site 398579011316 HIGH motif; other site 398579011317 KMSK motif region; other site 398579011318 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 398579011319 tRNA binding surface [nucleotide binding]; other site 398579011320 anticodon binding site; other site 398579011321 Sporulation related domain; Region: SPOR; pfam05036 398579011322 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 398579011323 active site 398579011324 HslU subunit interaction site [polypeptide binding]; other site 398579011325 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 398579011326 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 398579011327 Walker A motif; other site 398579011328 ATP binding site [chemical binding]; other site 398579011329 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 398579011330 Walker B motif; other site 398579011331 arginine finger; other site 398579011332 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 398579011333 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 398579011334 purine nucleoside phosphorylase; Provisional; Region: PRK13374 398579011335 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 398579011336 putative transporter; Provisional; Region: PRK03699 398579011337 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 398579011338 putative substrate translocation pore; other site 398579011339 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398579011340 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 398579011341 ligand binding site [chemical binding]; other site 398579011342 flexible hinge region; other site 398579011343 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 398579011344 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 398579011345 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 398579011346 active site 398579011347 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 398579011348 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 398579011349 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 398579011350 putative active site [active] 398579011351 putative metal binding site [ion binding]; other site 398579011352 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 398579011353 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 398579011354 S-adenosylmethionine binding site [chemical binding]; other site 398579011355 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 398579011356 SCP-2 sterol transfer family; Region: SCP2; pfam02036 398579011357 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 398579011358 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 398579011359 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 398579011360 sec-independent translocase; Provisional; Region: PRK01770 398579011361 sec-independent translocase; Provisional; Region: tatB; PRK00404 398579011362 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 398579011363 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 398579011364 active site 398579011365 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 398579011366 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 398579011367 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579011368 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579011369 metal binding site [ion binding]; metal-binding site 398579011370 active site 398579011371 I-site; other site 398579011372 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 398579011373 dimer interface [polypeptide binding]; other site 398579011374 allosteric magnesium binding site [ion binding]; other site 398579011375 active site 398579011376 aspartate-rich active site metal binding site; other site 398579011377 Schiff base residues; other site 398579011378 preprotein translocase subunit SecA; Reviewed; Region: PRK13107 398579011379 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 398579011380 SEC-C motif; Region: SEC-C; pfam02810 398579011381 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 398579011382 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 398579011383 Peptidase family M23; Region: Peptidase_M23; pfam01551 398579011384 Protein of unknown function (DUF721); Region: DUF721; cl02324 398579011385 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 398579011386 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 398579011387 cell division protein FtsZ; Validated; Region: PRK09330 398579011388 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 398579011389 nucleotide binding site [chemical binding]; other site 398579011390 SulA interaction site; other site 398579011391 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 398579011392 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 398579011393 nucleotide binding site [chemical binding]; other site 398579011394 Cell division protein FtsA; Region: FtsA; pfam14450 398579011395 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 398579011396 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 398579011397 Cell division protein FtsQ; Region: FtsQ; pfam03799 398579011398 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 398579011399 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 398579011400 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398579011401 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398579011402 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 398579011403 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 398579011404 active site 398579011405 homodimer interface [polypeptide binding]; other site 398579011406 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 398579011407 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 398579011408 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398579011409 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398579011410 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 398579011411 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 398579011412 Mg++ binding site [ion binding]; other site 398579011413 putative catalytic motif [active] 398579011414 putative substrate binding site [chemical binding]; other site 398579011415 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 398579011416 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 398579011417 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398579011418 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398579011419 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 398579011420 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 398579011421 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398579011422 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398579011423 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 398579011424 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 398579011425 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 398579011426 Cell division protein FtsL; Region: FtsL; pfam04999 398579011427 MraW methylase family; Region: Methyltransf_5; pfam01795 398579011428 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 398579011429 cell division protein MraZ; Reviewed; Region: PRK00326 398579011430 MraZ protein; Region: MraZ; pfam02381 398579011431 MraZ protein; Region: MraZ; pfam02381 398579011432 glycerol kinase; Provisional; Region: glpK; PRK00047 398579011433 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 398579011434 N- and C-terminal domain interface [polypeptide binding]; other site 398579011435 active site 398579011436 MgATP binding site [chemical binding]; other site 398579011437 catalytic site [active] 398579011438 metal binding site [ion binding]; metal-binding site 398579011439 glycerol binding site [chemical binding]; other site 398579011440 homotetramer interface [polypeptide binding]; other site 398579011441 homodimer interface [polypeptide binding]; other site 398579011442 FBP binding site [chemical binding]; other site 398579011443 protein IIAGlc interface [polypeptide binding]; other site 398579011444 SnoaL-like domain; Region: SnoaL_2; pfam12680 398579011445 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 398579011446 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 398579011447 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 398579011448 substrate binding site [chemical binding]; other site 398579011449 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 398579011450 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 398579011451 substrate binding site [chemical binding]; other site 398579011452 ligand binding site [chemical binding]; other site 398579011453 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 398579011454 tartrate dehydrogenase; Region: TTC; TIGR02089 398579011455 2-isopropylmalate synthase; Validated; Region: PRK00915 398579011456 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 398579011457 active site 398579011458 catalytic residues [active] 398579011459 metal binding site [ion binding]; metal-binding site 398579011460 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 398579011461 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 398579011462 metal binding site [ion binding]; metal-binding site 398579011463 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 398579011464 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 398579011465 ATP binding site [chemical binding]; other site 398579011466 putative Mg++ binding site [ion binding]; other site 398579011467 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 398579011468 nucleotide binding region [chemical binding]; other site 398579011469 ATP-binding site [chemical binding]; other site 398579011470 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 398579011471 HRDC domain; Region: HRDC; pfam00570 398579011472 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 398579011473 CoenzymeA binding site [chemical binding]; other site 398579011474 subunit interaction site [polypeptide binding]; other site 398579011475 PHB binding site; other site 398579011476 Predicted permeases [General function prediction only]; Region: RarD; COG2962 398579011477 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 398579011478 N-acetylglutamate synthase; Validated; Region: PRK05279 398579011479 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 398579011480 putative feedback inhibition sensing region; other site 398579011481 putative nucleotide binding site [chemical binding]; other site 398579011482 putative substrate binding site [chemical binding]; other site 398579011483 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398579011484 Coenzyme A binding pocket [chemical binding]; other site 398579011485 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 398579011486 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 398579011487 hypothetical protein; Reviewed; Region: PRK00024 398579011488 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 398579011489 MPN+ (JAMM) motif; other site 398579011490 Zinc-binding site [ion binding]; other site 398579011491 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 398579011492 Flavoprotein; Region: Flavoprotein; pfam02441 398579011493 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 398579011494 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 398579011495 trimer interface [polypeptide binding]; other site 398579011496 active site 398579011497 division inhibitor protein; Provisional; Region: slmA; PRK09480 398579011498 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398579011499 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 398579011500 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398579011501 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 398579011502 GTP cyclohydrolase I; Provisional; Region: PLN03044 398579011503 active site 398579011504 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398579011505 active site 398579011506 ribonuclease PH; Reviewed; Region: rph; PRK00173 398579011507 Ribonuclease PH; Region: RNase_PH_bact; cd11362 398579011508 hexamer interface [polypeptide binding]; other site 398579011509 active site 398579011510 hypothetical protein; Provisional; Region: PRK11820 398579011511 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 398579011512 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 398579011513 HipA N-terminal domain; Region: Couple_hipA; pfam13657 398579011514 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 398579011515 HipA-like N-terminal domain; Region: HipA_N; pfam07805 398579011516 HipA-like C-terminal domain; Region: HipA_C; pfam07804 398579011517 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 398579011518 non-specific DNA binding site [nucleotide binding]; other site 398579011519 salt bridge; other site 398579011520 sequence-specific DNA binding site [nucleotide binding]; other site 398579011521 hypothetical protein; Provisional; Region: PRK11820 398579011522 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 398579011523 Restriction endonuclease; Region: Mrr_cat; pfam04471 398579011524 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 398579011525 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 398579011526 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 398579011527 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 398579011528 Nucleoside recognition; Region: Gate; pfam07670 398579011529 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 398579011530 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398579011531 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398579011532 DNA-binding site [nucleotide binding]; DNA binding site 398579011533 FCD domain; Region: FCD; pfam07729 398579011534 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398579011535 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579011536 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 398579011537 dimerization interface [polypeptide binding]; other site 398579011538 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 398579011539 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 398579011540 putative transporter; Provisional; Region: PRK09950 398579011541 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 398579011542 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 398579011543 active site pocket [active] 398579011544 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 398579011545 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 398579011546 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 398579011547 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 398579011548 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 398579011549 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 398579011550 molybdopterin cofactor binding site; other site 398579011551 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 398579011552 molybdopterin cofactor binding site; other site 398579011553 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 398579011554 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 398579011555 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398579011556 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398579011557 oligopeptide transporter, OPT superfamily; Region: OPT_sfam; TIGR00728 398579011558 OPT oligopeptide transporter protein; Region: OPT; pfam03169 398579011559 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 398579011560 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398579011561 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398579011562 ligand binding site [chemical binding]; other site 398579011563 VCBS repeat; Region: VCBS_repeat; TIGR01965 398579011564 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 398579011565 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398579011566 catalytic residue [active] 398579011567 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 398579011568 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 398579011569 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 398579011570 active site 398579011571 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 398579011572 Phosphotransferase enzyme family; Region: APH; pfam01636 398579011573 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; cl17270 398579011574 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 398579011575 active site 398579011576 Protein of unknown function (DUF805); Region: DUF805; pfam05656 398579011577 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 398579011578 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 398579011579 catalytic site [active] 398579011580 G-X2-G-X-G-K; other site 398579011581 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 398579011582 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 398579011583 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398579011584 Zn2+ binding site [ion binding]; other site 398579011585 Mg2+ binding site [ion binding]; other site 398579011586 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 398579011587 synthetase active site [active] 398579011588 NTP binding site [chemical binding]; other site 398579011589 metal binding site [ion binding]; metal-binding site 398579011590 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 398579011591 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 398579011592 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 398579011593 homotrimer interaction site [polypeptide binding]; other site 398579011594 putative active site [active] 398579011595 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 398579011596 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 398579011597 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 398579011598 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 398579011599 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 398579011600 acyl-activating enzyme (AAE) consensus motif; other site 398579011601 putative AMP binding site [chemical binding]; other site 398579011602 putative active site [active] 398579011603 putative CoA binding site [chemical binding]; other site 398579011604 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 398579011605 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 398579011606 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 398579011607 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 398579011608 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 398579011609 ssDNA binding site; other site 398579011610 generic binding surface II; other site 398579011611 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 398579011612 ATP binding site [chemical binding]; other site 398579011613 putative Mg++ binding site [ion binding]; other site 398579011614 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 398579011615 nucleotide binding region [chemical binding]; other site 398579011616 ATP-binding site [chemical binding]; other site 398579011617 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 398579011618 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 398579011619 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 398579011620 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 398579011621 putative acyl-acceptor binding pocket; other site 398579011622 Phosphopantetheine attachment site; Region: PP-binding; cl09936 398579011623 acyl carrier protein; Provisional; Region: PRK05350 398579011624 Predicted membrane protein [Function unknown]; Region: COG4648 398579011625 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 398579011626 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398579011627 acyl-activating enzyme (AAE) consensus motif; other site 398579011628 AMP binding site [chemical binding]; other site 398579011629 active site 398579011630 CoA binding site [chemical binding]; other site 398579011631 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 398579011632 active site 2 [active] 398579011633 active site 1 [active] 398579011634 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 398579011635 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 398579011636 Ligand binding site; other site 398579011637 Putative Catalytic site; other site 398579011638 DXD motif; other site 398579011639 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 398579011640 putative acyl-acceptor binding pocket; other site 398579011641 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 398579011642 active sites [active] 398579011643 tetramer interface [polypeptide binding]; other site 398579011644 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 398579011645 active site 398579011646 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 398579011647 Predicted exporter [General function prediction only]; Region: COG4258 398579011648 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 398579011649 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 398579011650 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398579011651 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 398579011652 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 398579011653 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 398579011654 dimer interface [polypeptide binding]; other site 398579011655 active site 398579011656 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 398579011657 putative active site 1 [active] 398579011658 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398579011659 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 398579011660 NAD(P) binding site [chemical binding]; other site 398579011661 active site 398579011662 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 398579011663 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 398579011664 dimer interface [polypeptide binding]; other site 398579011665 active site 398579011666 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 398579011667 active site residue [active] 398579011668 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 398579011669 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 398579011670 putative active site [active] 398579011671 dimerization interface [polypeptide binding]; other site 398579011672 putative tRNAtyr binding site [nucleotide binding]; other site 398579011673 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 398579011674 hypothetical protein; Reviewed; Region: PRK01637 398579011675 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 398579011676 4Fe-4S binding domain; Region: Fer4_5; pfam12801 398579011677 4Fe-4S binding domain; Region: Fer4_5; pfam12801 398579011678 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 398579011679 pyridoxamine kinase; Validated; Region: PRK05756 398579011680 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 398579011681 dimer interface [polypeptide binding]; other site 398579011682 pyridoxal binding site [chemical binding]; other site 398579011683 ATP binding site [chemical binding]; other site 398579011684 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 398579011685 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 398579011686 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 398579011687 G1 box; other site 398579011688 putative GEF interaction site [polypeptide binding]; other site 398579011689 GTP/Mg2+ binding site [chemical binding]; other site 398579011690 Switch I region; other site 398579011691 G2 box; other site 398579011692 G3 box; other site 398579011693 Switch II region; other site 398579011694 G4 box; other site 398579011695 G5 box; other site 398579011696 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 398579011697 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 398579011698 glutamine synthetase; Provisional; Region: glnA; PRK09469 398579011699 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 398579011700 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 398579011701 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 398579011702 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398579011703 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398579011704 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 398579011705 non-specific DNA binding site [nucleotide binding]; other site 398579011706 salt bridge; other site 398579011707 sequence-specific DNA binding site [nucleotide binding]; other site 398579011708 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 398579011709 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 398579011710 kynureninase; Region: kynureninase; TIGR01814 398579011711 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398579011712 catalytic residue [active] 398579011713 Domain of unknown function (DUF1864); Region: DUF1864; pfam08933 398579011714 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398579011715 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 398579011716 putative DNA binding site [nucleotide binding]; other site 398579011717 putative Zn2+ binding site [ion binding]; other site 398579011718 AsnC family; Region: AsnC_trans_reg; pfam01037 398579011719 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 398579011720 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 398579011721 dimer interface [polypeptide binding]; other site 398579011722 active site 398579011723 metal binding site [ion binding]; metal-binding site 398579011724 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 398579011725 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 398579011726 potential catalytic triad [active] 398579011727 conserved cys residue [active] 398579011728 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 398579011729 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 398579011730 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 398579011731 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 398579011732 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 398579011733 dimer interface [polypeptide binding]; other site 398579011734 phosphorylation site [posttranslational modification] 398579011735 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579011736 ATP binding site [chemical binding]; other site 398579011737 Mg2+ binding site [ion binding]; other site 398579011738 G-X-G motif; other site 398579011739 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 398579011740 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579011741 active site 398579011742 phosphorylation site [posttranslational modification] 398579011743 intermolecular recognition site; other site 398579011744 dimerization interface [polypeptide binding]; other site 398579011745 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 398579011746 Walker A motif; other site 398579011747 ATP binding site [chemical binding]; other site 398579011748 Walker B motif; other site 398579011749 arginine finger; other site 398579011750 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398579011751 Cation efflux family; Region: Cation_efflux; cl00316 398579011752 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 398579011753 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 398579011754 dimer interface [polypeptide binding]; other site 398579011755 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 398579011756 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579011757 active site 398579011758 phosphorylation site [posttranslational modification] 398579011759 intermolecular recognition site; other site 398579011760 dimerization interface [polypeptide binding]; other site 398579011761 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 398579011762 DNA binding site [nucleotide binding] 398579011763 two-component sensor protein; Provisional; Region: cpxA; PRK09470 398579011764 HAMP domain; Region: HAMP; pfam00672 398579011765 dimerization interface [polypeptide binding]; other site 398579011766 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 398579011767 dimer interface [polypeptide binding]; other site 398579011768 phosphorylation site [posttranslational modification] 398579011769 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579011770 ATP binding site [chemical binding]; other site 398579011771 Mg2+ binding site [ion binding]; other site 398579011772 G-X-G motif; other site 398579011773 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398579011774 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579011775 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579011776 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 398579011777 dimerization interface [polypeptide binding]; other site 398579011778 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 398579011779 heme-binding residues [chemical binding]; other site 398579011780 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 398579011781 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398579011782 L-aspartate oxidase; Provisional; Region: PRK06175 398579011783 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579011784 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579011785 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 398579011786 substrate binding pocket [chemical binding]; other site 398579011787 dimerization interface [polypeptide binding]; other site 398579011788 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 398579011789 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 398579011790 NADP binding site [chemical binding]; other site 398579011791 dimer interface [polypeptide binding]; other site 398579011792 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 398579011793 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398579011794 NAD(P) binding site [chemical binding]; other site 398579011795 catalytic residues [active] 398579011796 hypothetical protein; Provisional; Region: PRK10977 398579011797 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 398579011798 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 398579011799 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 398579011800 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579011801 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579011802 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 398579011803 substrate binding pocket [chemical binding]; other site 398579011804 dimerization interface [polypeptide binding]; other site 398579011805 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 398579011806 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 398579011807 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 398579011808 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 398579011809 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 398579011810 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 398579011811 Flagellar protein YcgR; Region: YcgR_2; pfam12945 398579011812 PilZ domain; Region: PilZ; pfam07238 398579011813 Methyltransferase domain; Region: Methyltransf_23; pfam13489 398579011814 Methyltransferase domain; Region: Methyltransf_11; pfam08241 398579011815 PAS domain S-box; Region: sensory_box; TIGR00229 398579011816 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 398579011817 putative active site [active] 398579011818 heme pocket [chemical binding]; other site 398579011819 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579011820 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579011821 metal binding site [ion binding]; metal-binding site 398579011822 active site 398579011823 I-site; other site 398579011824 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 398579011825 DTW domain; Region: DTW; cl01221 398579011826 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 398579011827 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 398579011828 putative substrate translocation pore; other site 398579011829 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 398579011830 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579011831 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 398579011832 substrate binding pocket [chemical binding]; other site 398579011833 dimerization interface [polypeptide binding]; other site 398579011834 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 398579011835 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 398579011836 Sel1-like repeats; Region: SEL1; smart00671 398579011837 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 398579011838 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 398579011839 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 398579011840 putative metal binding site [ion binding]; other site 398579011841 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 398579011842 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 398579011843 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 398579011844 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 398579011845 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 398579011846 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 398579011847 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 398579011848 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579011849 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579011850 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 398579011851 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579011852 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579011853 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 398579011854 dimerization interface [polypeptide binding]; other site 398579011855 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 398579011856 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 398579011857 dimer interface [polypeptide binding]; other site 398579011858 tetramer interface [polypeptide binding]; other site 398579011859 PYR/PP interface [polypeptide binding]; other site 398579011860 TPP binding site [chemical binding]; other site 398579011861 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 398579011862 TPP-binding site; other site 398579011863 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 398579011864 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 398579011865 nucleophilic elbow; other site 398579011866 catalytic triad; other site 398579011867 O-succinylbenzoate synthase; Provisional; Region: PRK05105 398579011868 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 398579011869 active site 398579011870 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 398579011871 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 398579011872 acyl-activating enzyme (AAE) consensus motif; other site 398579011873 putative AMP binding site [chemical binding]; other site 398579011874 putative active site [active] 398579011875 putative CoA binding site [chemical binding]; other site 398579011876 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398579011877 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398579011878 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 398579011879 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 398579011880 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398579011881 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 398579011882 DNA binding residues [nucleotide binding] 398579011883 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 398579011884 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 398579011885 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 398579011886 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398579011887 Walker A/P-loop; other site 398579011888 ATP binding site [chemical binding]; other site 398579011889 Q-loop/lid; other site 398579011890 ABC transporter signature motif; other site 398579011891 Walker B; other site 398579011892 D-loop; other site 398579011893 H-loop/switch region; other site 398579011894 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 398579011895 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 398579011896 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 398579011897 P loop; other site 398579011898 GTP binding site [chemical binding]; other site 398579011899 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 398579011900 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 398579011901 S-adenosylmethionine binding site [chemical binding]; other site 398579011902 Protein of unknown function (DUF1145); Region: DUF1145; pfam06611 398579011903 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 398579011904 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 398579011905 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 398579011906 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 398579011907 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579011908 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 398579011909 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 398579011910 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398579011911 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 398579011912 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398579011913 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579011914 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579011915 metal binding site [ion binding]; metal-binding site 398579011916 active site 398579011917 I-site; other site 398579011918 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 398579011919 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398579011920 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579011921 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 398579011922 Helix-turn-helix domain; Region: HTH_18; pfam12833 398579011923 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 398579011924 aromatic amino acid transport protein; Region: araaP; TIGR00837 398579011925 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 398579011926 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 398579011927 putative acyl-acceptor binding pocket; other site 398579011928 LexA repressor; Validated; Region: PRK00215 398579011929 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 398579011930 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 398579011931 Catalytic site [active] 398579011932 Cell division inhibitor SulA; Region: SulA; cl01880 398579011933 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 398579011934 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 398579011935 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 398579011936 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398579011937 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 398579011938 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398579011939 Cytochrome c; Region: Cytochrom_C; pfam00034 398579011940 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 398579011941 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 398579011942 Subunit I/III interface [polypeptide binding]; other site 398579011943 D-pathway; other site 398579011944 Subunit I/VIIc interface [polypeptide binding]; other site 398579011945 Subunit I/IV interface [polypeptide binding]; other site 398579011946 Subunit I/II interface [polypeptide binding]; other site 398579011947 Low-spin heme (heme a) binding site [chemical binding]; other site 398579011948 Subunit I/VIIa interface [polypeptide binding]; other site 398579011949 Subunit I/VIa interface [polypeptide binding]; other site 398579011950 Dimer interface; other site 398579011951 Putative water exit pathway; other site 398579011952 Binuclear center (heme a3/CuB) [ion binding]; other site 398579011953 K-pathway; other site 398579011954 Subunit I/Vb interface [polypeptide binding]; other site 398579011955 Putative proton exit pathway; other site 398579011956 Subunit I/VIb interface; other site 398579011957 Subunit I/VIc interface [polypeptide binding]; other site 398579011958 Electron transfer pathway; other site 398579011959 Subunit I/VIIIb interface [polypeptide binding]; other site 398579011960 Subunit I/VIIb interface [polypeptide binding]; other site 398579011961 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 398579011962 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 398579011963 Subunit III/VIIa interface [polypeptide binding]; other site 398579011964 Phospholipid binding site [chemical binding]; other site 398579011965 Subunit I/III interface [polypeptide binding]; other site 398579011966 Subunit III/VIb interface [polypeptide binding]; other site 398579011967 Subunit III/VIa interface; other site 398579011968 Subunit III/Vb interface [polypeptide binding]; other site 398579011969 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 398579011970 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 398579011971 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 398579011972 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 398579011973 UbiA prenyltransferase family; Region: UbiA; pfam01040 398579011974 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 398579011975 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 398579011976 Cu(I) binding site [ion binding]; other site 398579011977 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 398579011978 putative active site [active] 398579011979 putative metal binding site [ion binding]; other site 398579011980 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 398579011981 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 398579011982 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 398579011983 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 398579011984 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 398579011985 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 398579011986 putative active site [active] 398579011987 Zn binding site [ion binding]; other site 398579011988 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 398579011989 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 398579011990 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 398579011991 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 398579011992 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 398579011993 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 398579011994 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 398579011995 RNA binding site [nucleotide binding]; other site 398579011996 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 398579011997 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 398579011998 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 398579011999 osmolarity response regulator; Provisional; Region: ompR; PRK09468 398579012000 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579012001 active site 398579012002 phosphorylation site [posttranslational modification] 398579012003 intermolecular recognition site; other site 398579012004 dimerization interface [polypeptide binding]; other site 398579012005 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 398579012006 DNA binding site [nucleotide binding] 398579012007 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 398579012008 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 398579012009 dimerization interface [polypeptide binding]; other site 398579012010 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 398579012011 dimer interface [polypeptide binding]; other site 398579012012 phosphorylation site [posttranslational modification] 398579012013 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579012014 ATP binding site [chemical binding]; other site 398579012015 Mg2+ binding site [ion binding]; other site 398579012016 G-X-G motif; other site 398579012017 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 398579012018 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 398579012019 dimerization interface [polypeptide binding]; other site 398579012020 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398579012021 dimer interface [polypeptide binding]; other site 398579012022 putative CheW interface [polypeptide binding]; other site 398579012023 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579012024 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 398579012025 LysR substrate binding domain; Region: LysR_substrate; pfam03466 398579012026 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; pfam03502 398579012027 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 398579012028 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 398579012029 catalytic residues [active] 398579012030 hinge region; other site 398579012031 alpha helical domain; other site 398579012032 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 398579012033 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398579012034 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398579012035 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; pfam03502 398579012036 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 398579012037 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 398579012038 catalytic residues [active] 398579012039 hinge region; other site 398579012040 alpha helical domain; other site 398579012041 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 398579012042 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398579012043 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579012044 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 398579012045 dimerization interface [polypeptide binding]; other site 398579012046 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 398579012047 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 398579012048 substrate binding pocket [chemical binding]; other site 398579012049 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398579012050 carnitine operon protein CaiE; Provisional; Region: PRK13627 398579012051 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 398579012052 putative trimer interface [polypeptide binding]; other site 398579012053 putative metal binding site [ion binding]; other site 398579012054 enoyl-CoA hydratase; Region: PLN02864 398579012055 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 398579012056 active site 2 [active] 398579012057 active site 1 [active] 398579012058 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 398579012059 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 398579012060 substrate binding site [chemical binding]; other site 398579012061 oxyanion hole (OAH) forming residues; other site 398579012062 trimer interface [polypeptide binding]; other site 398579012063 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 398579012064 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 398579012065 acyl-activating enzyme (AAE) consensus motif; other site 398579012066 putative AMP binding site [chemical binding]; other site 398579012067 putative active site [active] 398579012068 putative CoA binding site [chemical binding]; other site 398579012069 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 398579012070 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398579012071 crotonobetainyl-CoA dehydrogenase; Validated; Region: PRK03354 398579012072 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 398579012073 active site 398579012074 L-carnitine/gamma-butyrobetaine antiporter; Provisional; Region: PRK03356 398579012075 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 398579012076 Ligand binding site [chemical binding]; other site 398579012077 Electron transfer flavoprotein domain; Region: ETF; pfam01012 398579012078 putative electron transfer flavoprotein FixB; Provisional; Region: fixB; PRK03363 398579012079 Electron transfer flavoprotein domain; Region: ETF; smart00893 398579012080 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 398579012081 oxidoreductase; Provisional; Region: PRK10015 398579012082 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398579012083 ferredoxin-like protein FixX; Provisional; Region: PRK15449 398579012084 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 398579012085 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 398579012086 putative substrate translocation pore; other site 398579012087 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 398579012088 MgtE intracellular N domain; Region: MgtE_N; smart00924 398579012089 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 398579012090 Divalent cation transporter; Region: MgtE; pfam01769 398579012091 Putative SAM-dependent methyltransferase; Region: SAM_MT; pfam04445 398579012092 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 398579012093 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398579012094 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 398579012095 DNA binding site [nucleotide binding] 398579012096 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 398579012097 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579012098 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579012099 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 398579012100 dimerization interface [polypeptide binding]; other site 398579012101 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 398579012102 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 398579012103 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 398579012104 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 398579012105 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398579012106 catalytic residue [active] 398579012107 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 398579012108 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 398579012109 AbgT putative transporter family; Region: ABG_transport; pfam03806 398579012110 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 398579012111 AbgT putative transporter family; Region: ABG_transport; pfam03806 398579012112 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 398579012113 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 398579012114 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398579012115 active site 398579012116 metal binding site [ion binding]; metal-binding site 398579012117 homotetramer interface [polypeptide binding]; other site 398579012118 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 398579012119 Protein export membrane protein; Region: SecD_SecF; cl14618 398579012120 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 398579012121 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398579012122 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579012123 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 398579012124 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398579012125 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 398579012126 C-terminal domain interface [polypeptide binding]; other site 398579012127 GSH binding site (G-site) [chemical binding]; other site 398579012128 dimer interface [polypeptide binding]; other site 398579012129 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 398579012130 N-terminal domain interface [polypeptide binding]; other site 398579012131 dimer interface [polypeptide binding]; other site 398579012132 substrate binding pocket (H-site) [chemical binding]; other site 398579012133 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 398579012134 active site 398579012135 oligopeptidase A; Provisional; Region: PRK10911 398579012136 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 398579012137 active site 398579012138 Zn binding site [ion binding]; other site 398579012139 glutathione reductase; Validated; Region: PRK06116 398579012140 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398579012141 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398579012142 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 398579012143 Integrase core domain; Region: rve; pfam00665 398579012144 Integrase core domain; Region: rve_3; pfam13683 398579012145 BCCT family transporter; Region: BCCT; pfam02028 398579012146 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 398579012147 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 398579012148 active site 398579012149 FMN binding site [chemical binding]; other site 398579012150 substrate binding site [chemical binding]; other site 398579012151 putative catalytic residue [active] 398579012152 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 398579012153 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 398579012154 metal binding site [ion binding]; metal-binding site 398579012155 putative dimer interface [polypeptide binding]; other site 398579012156 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 398579012157 EamA-like transporter family; Region: EamA; pfam00892 398579012158 EamA-like transporter family; Region: EamA; pfam00892 398579012159 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 398579012160 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 398579012161 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 398579012162 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 398579012163 active site 398579012164 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 398579012165 YheO-like PAS domain; Region: PAS_6; pfam08348 398579012166 HTH domain; Region: HTH_22; pfam13309 398579012167 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 398579012168 homotrimer interaction site [polypeptide binding]; other site 398579012169 putative active site [active] 398579012170 diaminopropionate ammonia-lyase; Provisional; Region: PRK08206 398579012171 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 398579012172 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398579012173 catalytic residue [active] 398579012174 Predicted membrane protein [Function unknown]; Region: COG2855 398579012175 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 398579012176 conserved cys residue [active] 398579012177 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 398579012178 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 398579012179 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398579012180 Zn2+ binding site [ion binding]; other site 398579012181 Mg2+ binding site [ion binding]; other site 398579012182 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 398579012183 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 398579012184 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 398579012185 Walker A/P-loop; other site 398579012186 ATP binding site [chemical binding]; other site 398579012187 Q-loop/lid; other site 398579012188 ABC transporter signature motif; other site 398579012189 Walker B; other site 398579012190 D-loop; other site 398579012191 H-loop/switch region; other site 398579012192 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 398579012193 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 398579012194 Walker A/P-loop; other site 398579012195 ATP binding site [chemical binding]; other site 398579012196 Q-loop/lid; other site 398579012197 ABC transporter signature motif; other site 398579012198 Walker B; other site 398579012199 D-loop; other site 398579012200 H-loop/switch region; other site 398579012201 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 398579012202 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 398579012203 N-terminal plug; other site 398579012204 ligand-binding site [chemical binding]; other site 398579012205 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 398579012206 chorismate binding enzyme; Region: Chorismate_bind; cl10555 398579012207 hypothetical protein; Provisional; Region: PRK11212 398579012208 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398579012209 Coenzyme A binding pocket [chemical binding]; other site 398579012210 HAMP domain; Region: HAMP; pfam00672 398579012211 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 398579012212 dimer interface [polypeptide binding]; other site 398579012213 phosphorylation site [posttranslational modification] 398579012214 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579012215 ATP binding site [chemical binding]; other site 398579012216 G-X-G motif; other site 398579012217 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398579012218 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579012219 active site 398579012220 phosphorylation site [posttranslational modification] 398579012221 intermolecular recognition site; other site 398579012222 dimerization interface [polypeptide binding]; other site 398579012223 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 398579012224 Walker A motif; other site 398579012225 ATP binding site [chemical binding]; other site 398579012226 Walker B motif; other site 398579012227 arginine finger; other site 398579012228 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398579012229 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 398579012230 PBP superfamily domain; Region: PBP_like_2; pfam12849 398579012231 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 398579012232 dimer interface [polypeptide binding]; other site 398579012233 conserved gate region; other site 398579012234 putative PBP binding loops; other site 398579012235 ABC-ATPase subunit interface; other site 398579012236 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 398579012237 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398579012238 Walker A/P-loop; other site 398579012239 ATP binding site [chemical binding]; other site 398579012240 Q-loop/lid; other site 398579012241 ABC transporter signature motif; other site 398579012242 Walker B; other site 398579012243 D-loop; other site 398579012244 H-loop/switch region; other site 398579012245 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 398579012246 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 398579012247 GTP binding site; other site 398579012248 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoeA; Provisional; Region: PRK14491 398579012249 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 398579012250 Walker A motif; other site 398579012251 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 398579012252 dimer interface [polypeptide binding]; other site 398579012253 putative functional site; other site 398579012254 putative MPT binding site; other site 398579012255 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 398579012256 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 398579012257 FeS/SAM binding site; other site 398579012258 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 398579012259 Protein of unknown function (DUF2806); Region: DUF2806; pfam10987 398579012260 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 398579012261 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 398579012262 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 398579012263 DNA binding site [nucleotide binding] 398579012264 catalytic residue [active] 398579012265 H2TH interface [polypeptide binding]; other site 398579012266 putative catalytic residues [active] 398579012267 turnover-facilitating residue; other site 398579012268 intercalation triad [nucleotide binding]; other site 398579012269 8OG recognition residue [nucleotide binding]; other site 398579012270 putative reading head residues; other site 398579012271 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 398579012272 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 398579012273 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 398579012274 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 398579012275 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 398579012276 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 398579012277 active site 398579012278 (T/H)XGH motif; other site 398579012279 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 398579012280 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 398579012281 active site 398579012282 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398579012283 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 398579012284 dimerization interface [polypeptide binding]; other site 398579012285 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 398579012286 dimer interface [polypeptide binding]; other site 398579012287 phosphorylation site [posttranslational modification] 398579012288 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398579012289 ATP binding site [chemical binding]; other site 398579012290 Mg2+ binding site [ion binding]; other site 398579012291 G-X-G motif; other site 398579012292 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398579012293 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398579012294 active site 398579012295 phosphorylation site [posttranslational modification] 398579012296 intermolecular recognition site; other site 398579012297 dimerization interface [polypeptide binding]; other site 398579012298 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 398579012299 DNA binding site [nucleotide binding] 398579012300 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 398579012301 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398579012302 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 398579012303 Walker A/P-loop; other site 398579012304 ATP binding site [chemical binding]; other site 398579012305 Q-loop/lid; other site 398579012306 ABC transporter signature motif; other site 398579012307 Walker B; other site 398579012308 D-loop; other site 398579012309 H-loop/switch region; other site 398579012310 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 398579012311 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 398579012312 dimer interface [polypeptide binding]; other site 398579012313 conserved gate region; other site 398579012314 putative PBP binding loops; other site 398579012315 ABC-ATPase subunit interface; other site 398579012316 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398579012317 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 398579012318 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 398579012319 MoaE homodimer interface [polypeptide binding]; other site 398579012320 MoaD interaction [polypeptide binding]; other site 398579012321 active site residues [active] 398579012322 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 398579012323 MoaE interaction surface [polypeptide binding]; other site 398579012324 MoeB interaction surface [polypeptide binding]; other site 398579012325 thiocarboxylated glycine; other site 398579012326 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 398579012327 trimer interface [polypeptide binding]; other site 398579012328 dimer interface [polypeptide binding]; other site 398579012329 putative active site [active] 398579012330 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 398579012331 MPT binding site; other site 398579012332 trimer interface [polypeptide binding]; other site 398579012333 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 398579012334 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 398579012335 FeS/SAM binding site; other site 398579012336 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 398579012337 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 398579012338 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398579012339 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 398579012340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 398579012341 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 398579012342 MOSC domain; Region: MOSC; pfam03473 398579012343 3-alpha domain; Region: 3-alpha; pfam03475 398579012344 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398579012345 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398579012346 metal binding site [ion binding]; metal-binding site 398579012347 active site 398579012348 I-site; other site 398579012349 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 398579012350 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398579012351 substrate binding site [chemical binding]; other site 398579012352 ATP binding site [chemical binding]; other site 398579012353 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 398579012354 periplasmic chaperone; Provisional; Region: PRK10780 398579012355 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 398579012356 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 398579012357 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 398579012358 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 398579012359 [4Fe-4S] binding site [ion binding]; other site 398579012360 molybdopterin cofactor binding site; other site 398579012361 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 398579012362 molybdopterin cofactor binding site; other site 398579012363 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 398579012364 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 398579012365 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 398579012366 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 398579012367 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 398579012368 [4Fe-4S] binding site [ion binding]; other site 398579012369 molybdopterin cofactor binding site; other site 398579012370 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 398579012371 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 398579012372 molybdopterin cofactor binding site; other site 398579012373 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 398579012374 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 398579012375 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 398579012376 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 398579012377 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 398579012378 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 398579012379 [4Fe-4S] binding site [ion binding]; other site 398579012380 molybdopterin cofactor binding site; other site 398579012381 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 398579012382 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 398579012383 molybdopterin cofactor binding site; other site 398579012384 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 398579012385 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 398579012386 Ferredoxin [Energy production and conversion]; Region: COG1146 398579012387 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 398579012388 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 398579012389 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 398579012390 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 398579012391 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 398579012392 Helix-turn-helix domain; Region: HTH_17; pfam12728 398579012393 PBP superfamily domain; Region: PBP_like; pfam12727 398579012394 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 398579012395 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 398579012396 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 398579012397 S-adenosylmethionine binding site [chemical binding]; other site 398579012398 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 398579012399 Chorismate lyase; Region: Chor_lyase; cl01230 398579012400 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 398579012401 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 398579012402 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 398579012403 FOG: PKD repeat [General function prediction only]; Region: COG3291 398579012404 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 398579012405 alpha-glucosidase; Provisional; Region: PRK10137 398579012406 Trehalase; Region: Trehalase; cl17346 398579012407 putative antibiotic transporter; Provisional; Region: PRK10739 398579012408 NRDE protein; Region: NRDE; cl01315 398579012409 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 398579012410 SnoaL-like domain; Region: SnoaL_3; pfam13474 398579012411 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 398579012412 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 398579012413 putative acyl-acceptor binding pocket; other site 398579012414 LysE type translocator; Region: LysE; cl00565 398579012415 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 398579012416 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398579012417 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 398579012418 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 398579012419 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 398579012420 dimer interface [polypeptide binding]; other site 398579012421 active site 398579012422 metal binding site [ion binding]; metal-binding site 398579012423 Cupin domain; Region: Cupin_2; cl17218 398579012424 Protein of unknown function (DUF3157); Region: DUF3157; pfam11355 398579012425 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 398579012426 D-cysteine desulfhydrase; Validated; Region: PRK03910 398579012427 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 398579012428 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398579012429 catalytic residue [active] 398579012430 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 398579012431 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; cl17322 398579012432 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 398579012433 homotrimer interaction site [polypeptide binding]; other site 398579012434 putative active site [active] 398579012435 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579012436 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579012437 The C-terminal substrate-domain of LysR-type transcriptional regulator, OccR, involved in the catabolism of octopine, contains the type 2 periplasmic binding fold; Region: PBP2_OccR; cd08457 398579012438 putative dimerization interface [polypeptide binding]; other site 398579012439 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 398579012440 active sites [active] 398579012441 tetramer interface [polypeptide binding]; other site 398579012442 urocanate hydratase; Provisional; Region: PRK05414 398579012443 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 398579012444 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398579012445 DNA-binding site [nucleotide binding]; DNA binding site 398579012446 UTRA domain; Region: UTRA; pfam07702 398579012447 imidazolonepropionase; Validated; Region: PRK09356 398579012448 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 398579012449 active site 398579012450 TIGR02646 family protein; Region: TIGR02646 398579012451 AAA domain; Region: AAA_21; pfam13304 398579012452 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398579012453 Q-loop/lid; other site 398579012454 ABC transporter signature motif; other site 398579012455 Walker B; other site 398579012456 D-loop; other site 398579012457 H-loop/switch region; other site 398579012458 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 398579012459 FtsX-like permease family; Region: FtsX; pfam02687 398579012460 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398579012461 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398579012462 Walker A/P-loop; other site 398579012463 ATP binding site [chemical binding]; other site 398579012464 Q-loop/lid; other site 398579012465 ABC transporter signature motif; other site 398579012466 Walker B; other site 398579012467 D-loop; other site 398579012468 H-loop/switch region; other site 398579012469 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398579012470 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579012471 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 398579012472 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 398579012473 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 398579012474 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398579012475 catalytic residue [active] 398579012476 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 398579012477 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 398579012478 binding surface 398579012479 TPR motif; other site 398579012480 2,3-diketo-5-methylthio-1-phosphopentane phosphatase; Region: enolase-ppase; TIGR01691 398579012481 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 398579012482 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 398579012483 active site 398579012484 Predicted acetyltransferase [General function prediction only]; Region: COG2388 398579012485 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 398579012486 active site 398579012487 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 398579012488 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 398579012489 acyl-activating enzyme (AAE) consensus motif; other site 398579012490 putative AMP binding site [chemical binding]; other site 398579012491 putative active site [active] 398579012492 putative CoA binding site [chemical binding]; other site 398579012493 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 398579012494 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398579012495 Walker A/P-loop; other site 398579012496 ATP binding site [chemical binding]; other site 398579012497 Q-loop/lid; other site 398579012498 ABC transporter signature motif; other site 398579012499 Walker B; other site 398579012500 D-loop; other site 398579012501 H-loop/switch region; other site 398579012502 Predicted transcriptional regulators [Transcription]; Region: COG1725 398579012503 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398579012504 DNA-binding site [nucleotide binding]; DNA binding site 398579012505 TAP-like protein; Region: Abhydrolase_4; pfam08386 398579012506 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 398579012507 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 398579012508 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398579012509 Walker A/P-loop; other site 398579012510 ATP binding site [chemical binding]; other site 398579012511 Q-loop/lid; other site 398579012512 ABC transporter signature motif; other site 398579012513 Walker B; other site 398579012514 D-loop; other site 398579012515 H-loop/switch region; other site 398579012516 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 398579012517 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 398579012518 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398579012519 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 398579012520 conserved cys residue [active] 398579012521 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398579012522 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 398579012523 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 398579012524 dimerization interface [polypeptide binding]; other site 398579012525 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398579012526 dimer interface [polypeptide binding]; other site 398579012527 putative CheW interface [polypeptide binding]; other site 398579012528 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 398579012529 MPT binding site; other site 398579012530 trimer interface [polypeptide binding]; other site 398579012531 Surface antigen; Region: Bac_surface_Ag; pfam01103 398579012532 NlpC/P60 family; Region: NLPC_P60; pfam00877 398579012533 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 398579012534 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 398579012535 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 398579012536 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 398579012537 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398579012538 Walker A/P-loop; other site 398579012539 ATP binding site [chemical binding]; other site 398579012540 Q-loop/lid; other site 398579012541 ABC transporter signature motif; other site 398579012542 Walker B; other site 398579012543 D-loop; other site 398579012544 H-loop/switch region; other site 398579012545 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398579012546 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579012547 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 398579012548 ligand binding site [chemical binding]; other site 398579012549 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 398579012550 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 398579012551 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398579012552 HlyD family secretion protein; Region: HlyD_3; pfam13437 398579012553 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 398579012554 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398579012555 Walker A/P-loop; other site 398579012556 ATP binding site [chemical binding]; other site 398579012557 Q-loop/lid; other site 398579012558 ABC transporter signature motif; other site 398579012559 Walker B; other site 398579012560 D-loop; other site 398579012561 H-loop/switch region; other site 398579012562 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 398579012563 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 398579012564 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 398579012565 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398579012566 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398579012567 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 398579012568 putative effector binding pocket; other site 398579012569 dimerization interface [polypeptide binding]; other site 398579012570 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398579012571 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 398579012572 active site 398579012573 metal binding site [ion binding]; metal-binding site 398579012574 SnoaL-like domain; Region: SnoaL_2; pfam12680 398579012575 HI0933-like protein; Region: HI0933_like; pfam03486 398579012576 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398579012577 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398579012578 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398579012579 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 398579012580 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 398579012581 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 398579012582 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 398579012583 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 398579012584 SecA binding site; other site 398579012585 Preprotein binding site; other site 398579012586 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 398579012587 active site residue [active] 398579012588 phosphoglyceromutase; Provisional; Region: PRK05434 398579012589 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 398579012590 AmiB activator; Provisional; Region: PRK11637 398579012591 Peptidase family M23; Region: Peptidase_M23; pfam01551 398579012592 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 398579012593 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 398579012594 protein binding site [polypeptide binding]; other site 398579012595 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 398579012596 Catalytic dyad [active] 398579012597 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 398579012598 NodB motif; other site 398579012599 putative active site [active] 398579012600 putative catalytic site [active] 398579012601 Zn binding site [ion binding]; other site 398579012602 Predicted transcriptional regulator [Transcription]; Region: COG1959 398579012603 Transcriptional regulator; Region: Rrf2; cl17282 398579012604 Flagellin N-methylase; Region: FliB; pfam03692 398579012605 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 398579012606 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 398579012607 4Fe-4S binding domain; Region: Fer4_5; pfam12801 398579012608 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 398579012609 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 398579012610 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 398579012611 substrate binding site [chemical binding]; other site 398579012612 oxyanion hole (OAH) forming residues; other site 398579012613 trimer interface [polypeptide binding]; other site 398579012614 Predicted membrane protein [Function unknown]; Region: COG3205 398579012615 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 398579012616 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 398579012617 PBP superfamily domain; Region: PBP_like_2; cl17296 398579012618 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398579012619 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 398579012620 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 398579012621 dimer interface [polypeptide binding]; other site 398579012622 conserved gate region; other site 398579012623 putative PBP binding loops; other site 398579012624 ABC-ATPase subunit interface; other site 398579012625 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 398579012626 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 398579012627 dimer interface [polypeptide binding]; other site 398579012628 conserved gate region; other site 398579012629 putative PBP binding loops; other site 398579012630 ABC-ATPase subunit interface; other site 398579012631 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14253 398579012632 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 398579012633 Walker A/P-loop; other site 398579012634 ATP binding site [chemical binding]; other site 398579012635 Q-loop/lid; other site 398579012636 ABC transporter signature motif; other site 398579012637 Walker B; other site 398579012638 D-loop; other site 398579012639 H-loop/switch region; other site 398579012640 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 398579012641 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 398579012642 active site 398579012643 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 398579012644 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 398579012645 glutaminase active site [active] 398579012646 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 398579012647 dimer interface [polypeptide binding]; other site 398579012648 active site 398579012649 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 398579012650 dimer interface [polypeptide binding]; other site 398579012651 active site 398579012652 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 398579012653 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 398579012654 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 398579012655 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 398579012656 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 398579012657 N-terminal plug; other site 398579012658 ligand-binding site [chemical binding]; other site 398579012659 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 398579012660 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 398579012661 Substrate binding site; other site 398579012662 Mg++ binding site; other site 398579012663 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 398579012664 active site 398579012665 substrate binding site [chemical binding]; other site 398579012666 CoA binding site [chemical binding]; other site 398579012667 DsrE/DsrF-like family; Region: DrsE; cl00672 398579012668 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 398579012669 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 398579012670 gamma subunit interface [polypeptide binding]; other site 398579012671 LBP interface [polypeptide binding]; other site 398579012672 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 398579012673 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 398579012674 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 398579012675 alpha subunit interaction interface [polypeptide binding]; other site 398579012676 Walker A motif; other site 398579012677 ATP binding site [chemical binding]; other site 398579012678 Walker B motif; other site 398579012679 inhibitor binding site; inhibition site 398579012680 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 398579012681 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 398579012682 core domain interface [polypeptide binding]; other site 398579012683 delta subunit interface [polypeptide binding]; other site 398579012684 epsilon subunit interface [polypeptide binding]; other site 398579012685 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 398579012686 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 398579012687 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 398579012688 beta subunit interaction interface [polypeptide binding]; other site 398579012689 Walker A motif; other site 398579012690 ATP binding site [chemical binding]; other site 398579012691 Walker B motif; other site 398579012692 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 398579012693 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 398579012694 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 398579012695 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 398579012696 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 398579012697 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 398579012698 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 398579012699 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 398579012700 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 398579012701 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 398579012702 ParB-like nuclease domain; Region: ParBc; pfam02195 398579012703 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 398579012704 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 398579012705 P-loop; other site 398579012706 Magnesium ion binding site [ion binding]; other site 398579012707 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 398579012708 Magnesium ion binding site [ion binding]; other site 398579012709 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 398579012710 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 398579012711 S-adenosylmethionine binding site [chemical binding]; other site 398579012712 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 398579012713 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 398579012714 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 398579012715 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 398579012716 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 398579012717 FMN-binding protein MioC; Provisional; Region: PRK09004 398579012718 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 398579012719 active site 398579012720 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398579012721 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 398579012722 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 398579012723 trmE is a tRNA modification GTPase; Region: trmE; cd04164 398579012724 G1 box; other site 398579012725 GTP/Mg2+ binding site [chemical binding]; other site 398579012726 Switch I region; other site 398579012727 G2 box; other site 398579012728 Switch II region; other site 398579012729 G3 box; other site 398579012730 G4 box; other site 398579012731 G5 box; other site 398579012732 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 398579012733 membrane protein insertase; Provisional; Region: PRK01318 398579012734 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 398579012735 Haemolytic domain; Region: Haemolytic; pfam01809 398579012736 ribonuclease P; Reviewed; Region: rnpA; PRK01732 398579012737 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399