-- dump date 20140619_102820 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1085623000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1085623000002 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1085623000003 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 1085623000004 Walker A motif; other site 1085623000005 ATP binding site [chemical binding]; other site 1085623000006 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 1085623000007 Walker B motif; other site 1085623000008 arginine finger; other site 1085623000009 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 1085623000010 DnaA box-binding interface [nucleotide binding]; other site 1085623000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 1085623000012 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 1085623000013 putative DNA binding surface [nucleotide binding]; other site 1085623000014 dimer interface [polypeptide binding]; other site 1085623000015 beta-clamp/clamp loader binding surface; other site 1085623000016 beta-clamp/translesion DNA polymerase binding surface; other site 1085623000017 recombination protein F; Reviewed; Region: recF; PRK00064 1085623000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1085623000019 Walker A/P-loop; other site 1085623000020 ATP binding site [chemical binding]; other site 1085623000021 Q-loop/lid; other site 1085623000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1085623000023 ABC transporter signature motif; other site 1085623000024 Walker B; other site 1085623000025 D-loop; other site 1085623000026 H-loop/switch region; other site 1085623000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1085623000028 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 1085623000029 Mg2+ binding site [ion binding]; other site 1085623000030 G-X-G motif; other site 1085623000031 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 1085623000032 anchoring element; other site 1085623000033 dimer interface [polypeptide binding]; other site 1085623000034 ATP binding site [chemical binding]; other site 1085623000035 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 1085623000036 active site 1085623000037 putative metal-binding site [ion binding]; other site 1085623000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1085623000039 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 1085623000040 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1085623000041 tRNA binding surface [nucleotide binding]; other site 1085623000042 anticodon binding site; other site 1085623000043 DALR anticodon binding domain; Region: DALR_1; pfam05746 1085623000044 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 1085623000045 dimer interface [polypeptide binding]; other site 1085623000046 motif 1; other site 1085623000047 active site 1085623000048 motif 2; other site 1085623000049 motif 3; other site 1085623000050 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1085623000051 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 1085623000052 Der GTPase activator; Provisional; Region: PRK05244 1085623000053 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1085623000054 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 1085623000055 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1085623000056 Cytochrome c; Region: Cytochrom_C; cl11414 1085623000057 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1085623000058 G1 box; other site 1085623000059 GTP/Mg2+ binding site [chemical binding]; other site 1085623000060 Switch I region; other site 1085623000061 G2 box; other site 1085623000062 G3 box; other site 1085623000063 Switch II region; other site 1085623000064 G4 box; other site 1085623000065 G5 box; other site 1085623000066 DNA polymerase I; Provisional; Region: PRK05755 1085623000067 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1085623000068 active site 1085623000069 metal binding site 1 [ion binding]; metal-binding site 1085623000070 putative 5' ssDNA interaction site; other site 1085623000071 metal binding site 3; metal-binding site 1085623000072 metal binding site 2 [ion binding]; metal-binding site 1085623000073 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1085623000074 putative DNA binding site [nucleotide binding]; other site 1085623000075 putative metal binding site [ion binding]; other site 1085623000076 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 1085623000077 active site 1085623000078 catalytic site [active] 1085623000079 substrate binding site [chemical binding]; other site 1085623000080 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1085623000081 active site 1085623000082 DNA binding site [nucleotide binding] 1085623000083 catalytic site [active] 1085623000084 Cation transport protein; Region: TrkH; cl17365 1085623000085 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1085623000086 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1085623000087 TrkA-N domain; Region: TrkA_N; pfam02254 1085623000088 TrkA-C domain; Region: TrkA_C; pfam02080 1085623000089 TrkA-N domain; Region: TrkA_N; pfam02254 1085623000090 TrkA-C domain; Region: TrkA_C; pfam02080 1085623000091 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1085623000092 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 1085623000093 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 1085623000094 S-adenosylmethionine binding site [chemical binding]; other site 1085623000095 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1085623000096 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1085623000097 putative active site [active] 1085623000098 substrate binding site [chemical binding]; other site 1085623000099 putative cosubstrate binding site; other site 1085623000100 catalytic site [active] 1085623000101 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1085623000102 substrate binding site [chemical binding]; other site 1085623000103 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 1085623000104 active site 1085623000105 catalytic residues [active] 1085623000106 metal binding site [ion binding]; metal-binding site 1085623000107 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1085623000108 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1085623000109 hypothetical protein; Provisional; Region: PRK10736 1085623000110 DNA protecting protein DprA; Region: dprA; TIGR00732 1085623000111 hypothetical protein; Validated; Region: PRK03430 1085623000112 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1085623000113 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 1085623000114 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1085623000115 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1085623000116 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1085623000117 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1085623000118 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1085623000119 OmpW family; Region: OmpW; cl17427 1085623000120 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1085623000121 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1085623000122 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1085623000123 shikimate binding site; other site 1085623000124 NAD(P) binding site [chemical binding]; other site 1085623000125 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1085623000126 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 1085623000127 trimer interface [polypeptide binding]; other site 1085623000128 putative metal binding site [ion binding]; other site 1085623000129 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1085623000130 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1085623000131 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 1085623000132 DNA binding site [nucleotide binding] 1085623000133 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1085623000134 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1085623000135 putative active site [active] 1085623000136 putative PHP Thumb interface [polypeptide binding]; other site 1085623000137 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 1085623000138 generic binding surface I; other site 1085623000139 generic binding surface II; other site 1085623000140 DNA Polymerase Y-family; Region: PolY_like; cd03468 1085623000141 active site 1085623000142 DNA binding site [nucleotide binding] 1085623000143 recA bacterial DNA recombination protein; Region: RecA; cl17211 1085623000144 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1085623000145 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1085623000146 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1085623000147 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1085623000148 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1085623000149 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1085623000150 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1085623000151 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1085623000152 PA_M28_1_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 1. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_1; cd04820 1085623000153 PA/protease or protease-like domain interface [polypeptide binding]; other site 1085623000154 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_2; cd05661 1085623000155 Peptidase family M28; Region: Peptidase_M28; pfam04389 1085623000156 metal binding site [ion binding]; metal-binding site 1085623000157 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1085623000158 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1085623000159 active site 1085623000160 KMSKS motif; other site 1085623000161 division inhibitor protein; Provisional; Region: slmA; PRK09480 1085623000162 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1085623000163 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1085623000164 Flavoprotein; Region: Flavoprotein; pfam02441 1085623000165 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1085623000166 hypothetical protein; Reviewed; Region: PRK00024 1085623000167 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1085623000168 MPN+ (JAMM) motif; other site 1085623000169 Zinc-binding site [ion binding]; other site 1085623000170 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 1085623000171 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1085623000172 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1085623000173 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1085623000174 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1085623000175 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1085623000176 DNA binding site [nucleotide binding] 1085623000177 catalytic residue [active] 1085623000178 H2TH interface [polypeptide binding]; other site 1085623000179 putative catalytic residues [active] 1085623000180 turnover-facilitating residue; other site 1085623000181 intercalation triad [nucleotide binding]; other site 1085623000182 8OG recognition residue [nucleotide binding]; other site 1085623000183 putative reading head residues; other site 1085623000184 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1085623000185 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1085623000186 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1085623000187 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1085623000188 active site 1085623000189 (T/H)XGH motif; other site 1085623000190 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 1085623000191 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 1085623000192 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1085623000193 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1085623000194 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 1085623000195 putative active site [active] 1085623000196 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1085623000197 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 1085623000198 substrate-cofactor binding pocket; other site 1085623000199 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1085623000200 catalytic residue [active] 1085623000201 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 1085623000202 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1085623000203 NAD(P) binding site [chemical binding]; other site 1085623000204 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 1085623000205 active site residue [active] 1085623000206 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 1085623000207 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 1085623000208 Rhomboid family; Region: Rhomboid; pfam01694 1085623000209 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 1085623000210 Chorismate lyase; Region: Chor_lyase; cl01230 1085623000211 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1085623000212 UbiA prenyltransferase family; Region: UbiA; pfam01040 1085623000213 Membrane fusogenic activity; Region: BMFP; pfam04380 1085623000214 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 1085623000215 Part of AAA domain; Region: AAA_19; pfam13245 1085623000216 Family description; Region: UvrD_C_2; pfam13538 1085623000217 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1085623000218 GAF domain; Region: GAF_2; pfam13185 1085623000219 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1085623000220 GAF domain; Region: GAF_3; pfam13492 1085623000221 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623000222 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623000223 metal binding site [ion binding]; metal-binding site 1085623000224 active site 1085623000225 I-site; other site 1085623000226 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 1085623000227 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1085623000228 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1085623000229 Uncharacterized conserved protein [Function unknown]; Region: COG4715 1085623000230 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1085623000231 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1085623000232 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1085623000233 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1085623000234 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 1085623000235 active site 1085623000236 purine riboside binding site [chemical binding]; other site 1085623000237 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 1085623000238 DNA polymerase II; Reviewed; Region: PRK05762 1085623000239 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 1085623000240 active site 1085623000241 catalytic site [active] 1085623000242 substrate binding site [chemical binding]; other site 1085623000243 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 1085623000244 active site 1085623000245 metal-binding site 1085623000246 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1085623000247 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623000248 active site 1085623000249 phosphorylation site [posttranslational modification] 1085623000250 intermolecular recognition site; other site 1085623000251 dimerization interface [polypeptide binding]; other site 1085623000252 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 1085623000253 DNA binding residues [nucleotide binding] 1085623000254 dimerization interface [polypeptide binding]; other site 1085623000255 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1085623000256 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 1085623000257 dimer interface [polypeptide binding]; other site 1085623000258 phosphorylation site [posttranslational modification] 1085623000259 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 1085623000260 ATP binding site [chemical binding]; other site 1085623000261 Mg2+ binding site [ion binding]; other site 1085623000262 G-X-G motif; other site 1085623000263 Response regulator receiver domain; Region: Response_reg; pfam00072 1085623000264 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623000265 active site 1085623000266 phosphorylation site [posttranslational modification] 1085623000267 intermolecular recognition site; other site 1085623000268 dimerization interface [polypeptide binding]; other site 1085623000269 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1085623000270 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1085623000271 putative acyl-acceptor binding pocket; other site 1085623000272 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 1085623000273 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 1085623000274 dimer interface [polypeptide binding]; other site 1085623000275 FMN binding site [chemical binding]; other site 1085623000276 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 1085623000277 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1085623000278 SelR domain; Region: SelR; pfam01641 1085623000279 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 1085623000280 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1085623000281 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 1085623000282 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1085623000283 Walker A/P-loop; other site 1085623000284 ATP binding site [chemical binding]; other site 1085623000285 Q-loop/lid; other site 1085623000286 ABC transporter signature motif; other site 1085623000287 Walker B; other site 1085623000288 D-loop; other site 1085623000289 H-loop/switch region; other site 1085623000290 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 1085623000291 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 1085623000292 dimer interface [polypeptide binding]; other site 1085623000293 conserved gate region; other site 1085623000294 putative PBP binding loops; other site 1085623000295 ABC-ATPase subunit interface; other site 1085623000296 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 1085623000297 hypothetical protein; Provisional; Region: PRK11622 1085623000298 Protein of unknown function, DUF547; Region: DUF547; pfam04784 1085623000299 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1085623000300 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1085623000301 mercuric reductase; Validated; Region: PRK06370 1085623000302 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1085623000303 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1085623000304 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1085623000305 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1085623000306 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 1085623000307 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 1085623000308 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 1085623000309 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1085623000310 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1085623000311 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1085623000312 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1085623000313 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1085623000314 SurA N-terminal domain; Region: SurA_N; pfam09312 1085623000315 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1085623000316 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1085623000317 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1085623000318 active site 1085623000319 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1085623000320 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 1085623000321 FMN binding site [chemical binding]; other site 1085623000322 substrate binding site [chemical binding]; other site 1085623000323 putative catalytic residue [active] 1085623000324 enoyl-CoA hydratase; Provisional; Region: PRK08260 1085623000325 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 1085623000326 substrate binding site [chemical binding]; other site 1085623000327 oxyanion hole (OAH) forming residues; other site 1085623000328 trimer interface [polypeptide binding]; other site 1085623000329 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1085623000330 Beta-lactamase; Region: Beta-lactamase; pfam00144 1085623000331 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 1085623000332 Carboxylesterase family; Region: COesterase; pfam00135 1085623000333 substrate binding pocket [chemical binding]; other site 1085623000334 catalytic triad [active] 1085623000335 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 1085623000336 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1085623000337 active site 1085623000338 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1085623000339 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1085623000340 active site 1085623000341 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1085623000342 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1085623000343 active site 1085623000344 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 1085623000345 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1085623000346 putative metal binding site [ion binding]; other site 1085623000347 AMP-binding domain protein; Validated; Region: PRK07529 1085623000348 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1085623000349 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 1085623000350 acyl-activating enzyme (AAE) consensus motif; other site 1085623000351 acyl-activating enzyme (AAE) consensus motif; other site 1085623000352 putative AMP binding site [chemical binding]; other site 1085623000353 putative active site [active] 1085623000354 putative CoA binding site [chemical binding]; other site 1085623000355 acetyl-CoA acetyltransferase; Provisional; Region: PRK08131 1085623000356 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 1085623000357 dimer interface [polypeptide binding]; other site 1085623000358 active site 1085623000359 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 1085623000360 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1085623000361 substrate binding site [chemical binding]; other site 1085623000362 oxyanion hole (OAH) forming residues; other site 1085623000363 trimer interface [polypeptide binding]; other site 1085623000364 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1085623000365 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1085623000366 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1085623000367 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1085623000368 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1085623000369 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1085623000370 DctM-like transporters; Region: DctM; pfam06808 1085623000371 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1085623000372 Predicted integral membrane protein [Function unknown]; Region: COG5616 1085623000373 TPR repeat; Region: TPR_11; pfam13414 1085623000374 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 1085623000375 TPR motif; other site 1085623000376 TPR repeat; Region: TPR_11; pfam13414 1085623000377 binding surface 1085623000378 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 1085623000379 binding surface 1085623000380 TPR motif; other site 1085623000381 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1085623000382 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1085623000383 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1085623000384 Bacterial transcriptional regulator; Region: IclR; pfam01614 1085623000385 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1085623000386 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1085623000387 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 1085623000388 dimerization interface [polypeptide binding]; other site 1085623000389 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1085623000390 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1085623000391 FAD binding site [chemical binding]; other site 1085623000392 substrate binding pocket [chemical binding]; other site 1085623000393 catalytic base [active] 1085623000394 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623000395 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623000396 metal binding site [ion binding]; metal-binding site 1085623000397 active site 1085623000398 I-site; other site 1085623000399 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1085623000400 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1085623000401 catalytic triad [active] 1085623000402 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 1085623000403 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 1085623000404 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1085623000405 putative catalytic site [active] 1085623000406 putative phosphate binding site [ion binding]; other site 1085623000407 putative metal binding site [ion binding]; other site 1085623000408 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1085623000409 putative catalytic site [active] 1085623000410 putative metal binding site [ion binding]; other site 1085623000411 putative phosphate binding site [ion binding]; other site 1085623000412 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 1085623000413 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 1085623000414 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1085623000415 Walker A/P-loop; other site 1085623000416 ATP binding site [chemical binding]; other site 1085623000417 Q-loop/lid; other site 1085623000418 ABC transporter signature motif; other site 1085623000419 Walker B; other site 1085623000420 D-loop; other site 1085623000421 H-loop/switch region; other site 1085623000422 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 1085623000423 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1085623000424 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1085623000425 Walker A/P-loop; other site 1085623000426 ATP binding site [chemical binding]; other site 1085623000427 Q-loop/lid; other site 1085623000428 ABC transporter signature motif; other site 1085623000429 Walker B; other site 1085623000430 D-loop; other site 1085623000431 H-loop/switch region; other site 1085623000432 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1085623000433 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1085623000434 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1085623000435 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1085623000436 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1085623000437 Membrane transport protein; Region: Mem_trans; cl09117 1085623000438 methionine gamma-lyase; Validated; Region: PRK07049 1085623000439 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 1085623000440 homodimer interface [polypeptide binding]; other site 1085623000441 substrate-cofactor binding pocket; other site 1085623000442 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1085623000443 catalytic residue [active] 1085623000444 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 1085623000445 active site 1085623000446 catalytic residues [active] 1085623000447 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 1085623000448 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 1085623000449 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1085623000450 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 1085623000451 putative active site [active] 1085623000452 catalytic triad [active] 1085623000453 putative dimer interface [polypeptide binding]; other site 1085623000454 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1085623000455 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1085623000456 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1085623000457 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 1085623000458 active site 1085623000459 dimer interface [polypeptide binding]; other site 1085623000460 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1085623000461 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1085623000462 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1085623000463 Walker A/P-loop; other site 1085623000464 ATP binding site [chemical binding]; other site 1085623000465 Q-loop/lid; other site 1085623000466 ABC transporter signature motif; other site 1085623000467 Walker B; other site 1085623000468 D-loop; other site 1085623000469 H-loop/switch region; other site 1085623000470 Isochorismatase family; Region: Isochorismatase; pfam00857 1085623000471 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 1085623000472 catalytic triad [active] 1085623000473 dimer interface [polypeptide binding]; other site 1085623000474 conserved cis-peptide bond; other site 1085623000475 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; cd00317 1085623000476 active site 1085623000477 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1085623000478 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 1085623000479 catalytic residues [active] 1085623000480 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1085623000481 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1085623000482 aldolase II superfamily protein; Provisional; Region: PRK07044 1085623000483 intersubunit interface [polypeptide binding]; other site 1085623000484 active site 1085623000485 Zn2+ binding site [ion binding]; other site 1085623000486 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1085623000487 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 1085623000488 active site pocket [active] 1085623000489 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1085623000490 Amidohydrolase; Region: Amidohydro_2; pfam04909 1085623000491 aldose dehydrogenase; Validated; Region: PRK06398 1085623000492 classical (c) SDRs; Region: SDR_c; cd05233 1085623000493 NAD(P) binding site [chemical binding]; other site 1085623000494 active site 1085623000495 SOUL heme-binding protein; Region: SOUL; pfam04832 1085623000496 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1085623000497 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 1085623000498 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1085623000499 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 1085623000500 dimerization interface [polypeptide binding]; other site 1085623000501 GAF domain; Region: GAF_3; pfam13492 1085623000502 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623000503 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623000504 metal binding site [ion binding]; metal-binding site 1085623000505 active site 1085623000506 I-site; other site 1085623000507 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 1085623000508 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 1085623000509 dimerization interface [polypeptide binding]; other site 1085623000510 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 1085623000511 active site residue [active] 1085623000512 OsmC-like protein; Region: OsmC; pfam02566 1085623000513 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1085623000514 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1085623000515 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1085623000516 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1085623000517 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1085623000518 structural tetrad; other site 1085623000519 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 1085623000520 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1085623000521 active site 1085623000522 Zn binding site [ion binding]; other site 1085623000523 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 1085623000524 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1085623000525 NADP binding site [chemical binding]; other site 1085623000526 dimer interface [polypeptide binding]; other site 1085623000527 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 1085623000528 putative active site [active] 1085623000529 putative catalytic site [active] 1085623000530 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1085623000531 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 1085623000532 putative C-terminal domain interface [polypeptide binding]; other site 1085623000533 putative GSH binding site (G-site) [chemical binding]; other site 1085623000534 putative dimer interface [polypeptide binding]; other site 1085623000535 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1085623000536 N-terminal domain interface [polypeptide binding]; other site 1085623000537 dimer interface [polypeptide binding]; other site 1085623000538 substrate binding pocket (H-site) [chemical binding]; other site 1085623000539 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1085623000540 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1085623000541 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1085623000542 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1085623000543 active site 1085623000544 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 1085623000545 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1085623000546 putative acyl-acceptor binding pocket; other site 1085623000547 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1085623000548 DNA methylase; Region: N6_N4_Mtase; cl17433 1085623000549 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 1085623000550 S-adenosylmethionine binding site [chemical binding]; other site 1085623000551 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 1085623000552 generic binding surface II; other site 1085623000553 generic binding surface I; other site 1085623000554 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 1085623000555 putative active site [active] 1085623000556 putative catalytic site [active] 1085623000557 putative Mg binding site IVb [ion binding]; other site 1085623000558 putative phosphate binding site [ion binding]; other site 1085623000559 putative DNA binding site [nucleotide binding]; other site 1085623000560 putative Mg binding site IVa [ion binding]; other site 1085623000561 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 1085623000562 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 1085623000563 dimer interface [polypeptide binding]; other site 1085623000564 FMN binding site [chemical binding]; other site 1085623000565 NADPH bind site [chemical binding]; other site 1085623000566 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 1085623000567 Ligand Binding Site [chemical binding]; other site 1085623000568 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 1085623000569 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1085623000570 substrate binding pocket [chemical binding]; other site 1085623000571 membrane-bound complex binding site; other site 1085623000572 hinge residues; other site 1085623000573 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 1085623000574 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 1085623000575 binding surface 1085623000576 TPR motif; other site 1085623000577 classical (c) SDRs; Region: SDR_c; cd05233 1085623000578 short chain dehydrogenase; Provisional; Region: PRK06181 1085623000579 NAD(P) binding site [chemical binding]; other site 1085623000580 active site 1085623000581 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1085623000582 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1085623000583 acyl-activating enzyme (AAE) consensus motif; other site 1085623000584 AMP binding site [chemical binding]; other site 1085623000585 active site 1085623000586 CoA binding site [chemical binding]; other site 1085623000587 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 1085623000588 heme binding pocket [chemical binding]; other site 1085623000589 heme ligand [chemical binding]; other site 1085623000590 Thermostable hemolysin; Region: T_hemolysin; pfam12261 1085623000591 haloalkane dehalogenase; Provisional; Region: PRK00870 1085623000592 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1085623000593 LabA_like proteins; Region: LabA; cd10911 1085623000594 putative metal binding site [ion binding]; other site 1085623000595 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623000596 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623000597 metal binding site [ion binding]; metal-binding site 1085623000598 active site 1085623000599 I-site; other site 1085623000600 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 1085623000601 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1085623000602 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1085623000603 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1085623000604 MG2 domain; Region: A2M_N; pfam01835 1085623000605 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 1085623000606 surface patch; other site 1085623000607 thioester region; other site 1085623000608 specificity defining residues; other site 1085623000609 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 1085623000610 Transglycosylase; Region: Transgly; pfam00912 1085623000611 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1085623000612 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1085623000613 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 1085623000614 PAS domain; Region: PAS_9; pfam13426 1085623000615 putative active site [active] 1085623000616 heme pocket [chemical binding]; other site 1085623000617 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 1085623000618 putative active site [active] 1085623000619 PAS fold; Region: PAS_3; pfam08447 1085623000620 heme pocket [chemical binding]; other site 1085623000621 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623000622 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623000623 metal binding site [ion binding]; metal-binding site 1085623000624 active site 1085623000625 I-site; other site 1085623000626 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 1085623000627 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 1085623000628 phosphate binding site [ion binding]; other site 1085623000629 ORF6N domain; Region: ORF6N; pfam10543 1085623000630 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 1085623000631 active site 1085623000632 GlyGly-CTERM domain; Region: GlyGly_CTERM; TIGR03501 1085623000633 Helix-turn-helix domain; Region: HTH_17; pfam12728 1085623000634 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1085623000635 HemY protein N-terminus; Region: HemY_N; pfam07219 1085623000636 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 1085623000637 TPR motif; other site 1085623000638 binding surface 1085623000639 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1085623000640 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1085623000641 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 1085623000642 active site 1085623000643 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1085623000644 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 1085623000645 domain interfaces; other site 1085623000646 active site 1085623000647 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1085623000648 putative hydrolase; Provisional; Region: PRK11460 1085623000649 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1085623000650 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 1085623000651 catalytic site [active] 1085623000652 G-X2-G-X-G-K; other site 1085623000653 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1085623000654 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1085623000655 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1085623000656 Zn2+ binding site [ion binding]; other site 1085623000657 Mg2+ binding site [ion binding]; other site 1085623000658 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1085623000659 synthetase active site [active] 1085623000660 NTP binding site [chemical binding]; other site 1085623000661 metal binding site [ion binding]; metal-binding site 1085623000662 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 1085623000663 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1085623000664 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 1085623000665 homotrimer interaction site [polypeptide binding]; other site 1085623000666 putative active site [active] 1085623000667 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 1085623000668 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1085623000669 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 1085623000670 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 1085623000671 putative catalytic residues [active] 1085623000672 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1085623000673 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1085623000674 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623000675 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623000676 metal binding site [ion binding]; metal-binding site 1085623000677 active site 1085623000678 I-site; other site 1085623000679 Creatinine amidohydrolase; Region: Creatininase; pfam02633 1085623000680 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1085623000681 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 1085623000682 ssDNA binding site; other site 1085623000683 generic binding surface II; other site 1085623000684 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 1085623000685 ATP binding site [chemical binding]; other site 1085623000686 putative Mg++ binding site [ion binding]; other site 1085623000687 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 1085623000688 nucleotide binding region [chemical binding]; other site 1085623000689 ATP-binding site [chemical binding]; other site 1085623000690 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 1085623000691 S-adenosylmethionine binding site [chemical binding]; other site 1085623000692 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 1085623000693 catalytic triad [active] 1085623000694 dimer interface [polypeptide binding]; other site 1085623000695 Predicted flavoproteins [General function prediction only]; Region: COG2081 1085623000696 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1085623000697 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623000698 metal binding site [ion binding]; metal-binding site 1085623000699 active site 1085623000700 I-site; other site 1085623000701 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 1085623000702 Sensors of blue-light using FAD; Region: BLUF; pfam04940 1085623000703 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 1085623000704 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1085623000705 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1085623000706 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1085623000707 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 1085623000708 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1085623000709 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1085623000710 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1085623000711 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1085623000712 D-pathway; other site 1085623000713 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623000714 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623000715 metal binding site [ion binding]; metal-binding site 1085623000716 active site 1085623000717 I-site; other site 1085623000718 beta-ketothiolase; Provisional; Region: PRK09051 1085623000719 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 1085623000720 dimer interface [polypeptide binding]; other site 1085623000721 active site 1085623000722 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 1085623000723 putative DNA binding site [nucleotide binding]; other site 1085623000724 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1085623000725 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1085623000726 active site 1085623000727 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 1085623000728 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1085623000729 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1085623000730 arsenical-resistance protein; Region: acr3; TIGR00832 1085623000731 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1085623000732 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1085623000733 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1085623000734 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 1085623000735 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1085623000736 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1085623000737 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1085623000738 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 1085623000739 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 1085623000740 bifunctional glutathionylspermidine amidase/glutathionylspermidine synthetase; Provisional; Region: PRK10507 1085623000741 CHAP domain; Region: CHAP; pfam05257 1085623000742 Glutathionylspermidine synthase preATP-grasp; Region: GSP_synth; cl00503 1085623000743 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 1085623000744 30S subunit binding site; other site 1085623000745 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 1085623000746 glutaminase; Provisional; Region: PRK00971 1085623000747 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1085623000748 Family description; Region: VCBS; pfam13517 1085623000749 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 1085623000750 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1085623000751 C-terminal domain interface [polypeptide binding]; other site 1085623000752 GSH binding site (G-site) [chemical binding]; other site 1085623000753 dimer interface [polypeptide binding]; other site 1085623000754 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1085623000755 N-terminal domain interface [polypeptide binding]; other site 1085623000756 dimer interface [polypeptide binding]; other site 1085623000757 substrate binding pocket (H-site) [chemical binding]; other site 1085623000758 thioredoxin 2; Provisional; Region: PRK10996 1085623000759 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 1085623000760 catalytic residues [active] 1085623000761 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1085623000762 Transcriptional activator [Transcription]; Region: ChrR; COG3806 1085623000763 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1085623000764 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1085623000765 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1085623000766 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 1085623000767 FeoA domain; Region: FeoA; pfam04023 1085623000768 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1085623000769 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1085623000770 G1 box; other site 1085623000771 GTP/Mg2+ binding site [chemical binding]; other site 1085623000772 Switch I region; other site 1085623000773 G2 box; other site 1085623000774 G3 box; other site 1085623000775 Switch II region; other site 1085623000776 G4 box; other site 1085623000777 G5 box; other site 1085623000778 Nucleoside recognition; Region: Gate; pfam07670 1085623000779 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1085623000780 Nucleoside recognition; Region: Gate; pfam07670 1085623000781 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1085623000782 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1085623000783 ligand binding site [chemical binding]; other site 1085623000784 homodimer interface [polypeptide binding]; other site 1085623000785 NAD(P) binding site [chemical binding]; other site 1085623000786 trimer interface B [polypeptide binding]; other site 1085623000787 trimer interface A [polypeptide binding]; other site 1085623000788 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1085623000789 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1085623000790 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1085623000791 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 1085623000792 non-specific DNA binding site [nucleotide binding]; other site 1085623000793 salt bridge; other site 1085623000794 sequence-specific DNA binding site [nucleotide binding]; other site 1085623000795 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 1085623000796 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1085623000797 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1085623000798 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 1085623000799 trimer interface [polypeptide binding]; other site 1085623000800 dimer interface [polypeptide binding]; other site 1085623000801 putative active site [active] 1085623000802 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1085623000803 MoaE interaction surface [polypeptide binding]; other site 1085623000804 MoeB interaction surface [polypeptide binding]; other site 1085623000805 thiocarboxylated glycine; other site 1085623000806 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1085623000807 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 1085623000808 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 1085623000809 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 1085623000810 dimerization interface [polypeptide binding]; other site 1085623000811 active site 1085623000812 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1085623000813 PAS domain S-box; Region: sensory_box; TIGR00229 1085623000814 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623000815 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623000816 metal binding site [ion binding]; metal-binding site 1085623000817 active site 1085623000818 I-site; other site 1085623000819 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 1085623000820 hypothetical protein; Validated; Region: PRK00029 1085623000821 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1085623000822 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1085623000823 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1085623000824 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1085623000825 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 1085623000826 putative C-terminal domain interface [polypeptide binding]; other site 1085623000827 putative GSH binding site (G-site) [chemical binding]; other site 1085623000828 putative dimer interface [polypeptide binding]; other site 1085623000829 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1085623000830 N-terminal domain interface [polypeptide binding]; other site 1085623000831 dimer interface [polypeptide binding]; other site 1085623000832 substrate binding pocket (H-site) [chemical binding]; other site 1085623000833 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 1085623000834 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 1085623000835 ATP binding site [chemical binding]; other site 1085623000836 putative Mg++ binding site [ion binding]; other site 1085623000837 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 1085623000838 nucleotide binding region [chemical binding]; other site 1085623000839 ATP-binding site [chemical binding]; other site 1085623000840 CXXC zinc finger domain; Region: zf-CXXC; pfam02008 1085623000841 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1085623000842 HRDC domain; Region: HRDC; pfam00570 1085623000843 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 1085623000844 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1085623000845 oligomeric interface; other site 1085623000846 putative active site [active] 1085623000847 homodimer interface [polypeptide binding]; other site 1085623000848 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1085623000849 EamA-like transporter family; Region: EamA; pfam00892 1085623000850 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1085623000851 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1085623000852 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 1085623000853 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 1085623000854 TPR repeat; Region: TPR_11; pfam13414 1085623000855 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 1085623000856 binding surface 1085623000857 TPR motif; other site 1085623000858 TPR repeat; Region: TPR_11; pfam13414 1085623000859 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1085623000860 endonuclease VIII; Provisional; Region: PRK10445 1085623000861 N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: FpgNei_N; cl03119 1085623000862 DNA binding site [nucleotide binding] 1085623000863 catalytic residue [active] 1085623000864 H2TH interface [polypeptide binding]; other site 1085623000865 putative catalytic residues [active] 1085623000866 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1085623000867 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1085623000868 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1085623000869 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1085623000870 Phosphate-starvation-inducible E; Region: PsiE; cl01264 1085623000871 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1085623000872 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1085623000873 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1085623000874 HlyD family secretion protein; Region: HlyD_3; pfam13437 1085623000875 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 1085623000876 YaeQ protein; Region: YaeQ; pfam07152 1085623000877 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1085623000878 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1085623000879 putative acyl-acceptor binding pocket; other site 1085623000880 selenophosphate synthetase; Provisional; Region: PRK00943 1085623000881 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 1085623000882 dimerization interface [polypeptide binding]; other site 1085623000883 putative ATP binding site [chemical binding]; other site 1085623000884 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 1085623000885 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 1085623000886 active site residue [active] 1085623000887 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1085623000888 Part of AAA domain; Region: AAA_19; pfam13245 1085623000889 Family description; Region: UvrD_C_2; pfam13538 1085623000890 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 1085623000891 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 1085623000892 phosphate binding site [ion binding]; other site 1085623000893 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1085623000894 nucleotide binding site [chemical binding]; other site 1085623000895 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1085623000896 nucleotide binding site [chemical binding]; other site 1085623000897 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1085623000898 SBD interface [polypeptide binding]; other site 1085623000899 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1085623000900 HlyD family secretion protein; Region: HlyD_3; pfam13437 1085623000901 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1085623000902 Protein export membrane protein; Region: SecD_SecF; cl14618 1085623000903 Protein export membrane protein; Region: SecD_SecF; cl14618 1085623000904 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 1085623000905 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1085623000906 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1085623000907 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 1085623000908 active site 1085623000909 FMN binding site [chemical binding]; other site 1085623000910 2,4-decadienoyl-CoA binding site; other site 1085623000911 catalytic residue [active] 1085623000912 4Fe-4S cluster binding site [ion binding]; other site 1085623000913 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1085623000914 HAMP domain; Region: HAMP; pfam00672 1085623000915 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1085623000916 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1085623000917 dimer interface [polypeptide binding]; other site 1085623000918 putative CheW interface [polypeptide binding]; other site 1085623000919 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 1085623000920 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 1085623000921 motif II; other site 1085623000922 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1085623000923 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 1085623000924 active site 1085623000925 DNA binding site [nucleotide binding] 1085623000926 Int/Topo IB signature motif; other site 1085623000927 Protein of unknown function, DUF484; Region: DUF484; cl17449 1085623000928 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1085623000929 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1085623000930 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1085623000931 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1085623000932 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1085623000933 active site 1085623000934 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1085623000935 substrate binding site [chemical binding]; other site 1085623000936 catalytic residues [active] 1085623000937 dimer interface [polypeptide binding]; other site 1085623000938 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 1085623000939 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1085623000940 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 1085623000941 active site 1085623000942 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1085623000943 S1/P1 nucleases and related enzymes; Region: S1-P1_nuclease; cd11010 1085623000944 active site 1085623000945 Zn binding site [ion binding]; other site 1085623000946 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1085623000947 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1085623000948 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1085623000949 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1085623000950 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 1085623000951 AMP binding site [chemical binding]; other site 1085623000952 metal binding site [ion binding]; metal-binding site 1085623000953 active site 1085623000954 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 1085623000955 dimer interface [polypeptide binding]; other site 1085623000956 substrate binding site [chemical binding]; other site 1085623000957 metal binding sites [ion binding]; metal-binding site 1085623000958 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 1085623000959 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1085623000960 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 1085623000961 dimerization interface [polypeptide binding]; other site 1085623000962 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1085623000963 dimer interface [polypeptide binding]; other site 1085623000964 putative CheW interface [polypeptide binding]; other site 1085623000965 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1085623000966 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 1085623000967 dimer interface [polypeptide binding]; other site 1085623000968 phosphorylation site [posttranslational modification] 1085623000969 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 1085623000970 ATP binding site [chemical binding]; other site 1085623000971 Mg2+ binding site [ion binding]; other site 1085623000972 G-X-G motif; other site 1085623000973 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1085623000974 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623000975 active site 1085623000976 phosphorylation site [posttranslational modification] 1085623000977 intermolecular recognition site; other site 1085623000978 dimerization interface [polypeptide binding]; other site 1085623000979 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1085623000980 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 1085623000981 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 1085623000982 active site 1085623000983 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1085623000984 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1085623000985 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1085623000986 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1085623000987 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 1085623000988 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1085623000989 putative substrate translocation pore; other site 1085623000990 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1085623000991 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 1085623000992 dimer interface [polypeptide binding]; other site 1085623000993 ssDNA binding site [nucleotide binding]; other site 1085623000994 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1085623000995 Competence protein A; Region: Competence_A; pfam11104 1085623000996 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1085623000997 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 1085623000998 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1085623000999 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1085623001000 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 1085623001001 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 1085623001002 Walker A motif; other site 1085623001003 ATP binding site [chemical binding]; other site 1085623001004 Walker B motif; other site 1085623001005 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1085623001006 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 1085623001007 TPR motif; other site 1085623001008 binding surface 1085623001009 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 1085623001010 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1085623001011 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 1085623001012 Walker A motif; other site 1085623001013 ATP binding site [chemical binding]; other site 1085623001014 Walker B motif; other site 1085623001015 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1085623001016 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1085623001017 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1085623001018 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1085623001019 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 1085623001020 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1085623001021 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1085623001022 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 1085623001023 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 1085623001024 calcium mediated ligand binding site; other site 1085623001025 intermolecular salt bridges; other site 1085623001026 rod shape-determining protein MreB; Provisional; Region: PRK13927 1085623001027 MreB and similar proteins; Region: MreB_like; cd10225 1085623001028 nucleotide binding site [chemical binding]; other site 1085623001029 Mg binding site [ion binding]; other site 1085623001030 putative protofilament interaction site [polypeptide binding]; other site 1085623001031 RodZ interaction site [polypeptide binding]; other site 1085623001032 rod shape-determining protein MreC; Provisional; Region: PRK13922 1085623001033 rod shape-determining protein MreC; Region: MreC; pfam04085 1085623001034 rod shape-determining protein MreD; Region: MreD; cl01087 1085623001035 Maf-like protein; Region: Maf; pfam02545 1085623001036 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 1085623001037 active site 1085623001038 dimer interface [polypeptide binding]; other site 1085623001039 ribonuclease G; Provisional; Region: PRK11712 1085623001040 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 1085623001041 homodimer interface [polypeptide binding]; other site 1085623001042 oligonucleotide binding site [chemical binding]; other site 1085623001043 TIGR02099 family protein; Region: TIGR02099 1085623001044 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1085623001045 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1085623001046 nitrilase; Region: PLN02798 1085623001047 putative active site [active] 1085623001048 catalytic triad [active] 1085623001049 dimer interface [polypeptide binding]; other site 1085623001050 protease TldD; Provisional; Region: tldD; PRK10735 1085623001051 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1085623001052 YebG protein; Region: YebG; pfam07130 1085623001053 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 1085623001054 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 1085623001055 motif II; other site 1085623001056 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 1085623001057 Response regulator receiver domain; Region: Response_reg; pfam00072 1085623001058 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623001059 active site 1085623001060 phosphorylation site [posttranslational modification] 1085623001061 intermolecular recognition site; other site 1085623001062 dimerization interface [polypeptide binding]; other site 1085623001063 Helix-turn-helix domain; Region: HTH_18; pfam12833 1085623001064 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1085623001065 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1085623001066 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1085623001067 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1085623001068 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1085623001069 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 1085623001070 Walker A motif; other site 1085623001071 ATP binding site [chemical binding]; other site 1085623001072 Walker B motif; other site 1085623001073 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1085623001074 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 1085623001075 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1085623001076 Peptidase family U32; Region: Peptidase_U32; pfam01136 1085623001077 Collagenase; Region: DUF3656; pfam12392 1085623001078 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1085623001079 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1085623001080 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 1085623001081 putative N-terminal domain interface [polypeptide binding]; other site 1085623001082 putative dimer interface [polypeptide binding]; other site 1085623001083 putative substrate binding pocket (H-site) [chemical binding]; other site 1085623001084 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cl01109 1085623001085 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1085623001086 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1085623001087 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1085623001088 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1085623001089 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1085623001090 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1085623001091 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1085623001092 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1085623001093 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 1085623001094 putative translocon binding site; other site 1085623001095 protein-rRNA interface [nucleotide binding]; other site 1085623001096 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1085623001097 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 1085623001098 G-X-X-G motif; other site 1085623001099 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1085623001100 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 1085623001101 23S rRNA interface [nucleotide binding]; other site 1085623001102 5S rRNA interface [nucleotide binding]; other site 1085623001103 putative antibiotic binding site [chemical binding]; other site 1085623001104 L25 interface [polypeptide binding]; other site 1085623001105 L27 interface [polypeptide binding]; other site 1085623001106 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 1085623001107 23S rRNA interface [nucleotide binding]; other site 1085623001108 putative translocon interaction site; other site 1085623001109 signal recognition particle (SRP54) interaction site; other site 1085623001110 L23 interface [polypeptide binding]; other site 1085623001111 trigger factor interaction site; other site 1085623001112 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1085623001113 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1085623001114 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1085623001115 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 1085623001116 FeS/SAM binding site; other site 1085623001117 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1085623001118 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1085623001119 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1085623001120 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1085623001121 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1085623001122 active site 1085623001123 Zn binding site [ion binding]; other site 1085623001124 putative outer membrane lipoprotein; Provisional; Region: PRK10510 1085623001125 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1085623001126 ligand binding site [chemical binding]; other site 1085623001127 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1085623001128 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1085623001129 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1085623001130 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1085623001131 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 1085623001132 S-adenosylmethionine binding site [chemical binding]; other site 1085623001133 4Fe-4S binding domain; Region: Fer4; cl02805 1085623001134 Ferredoxin [Energy production and conversion]; Region: COG1146 1085623001135 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1085623001136 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 1085623001137 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1085623001138 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 1085623001139 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_C39A; cd02549 1085623001140 putative active site [active] 1085623001141 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 1085623001142 TPR motif; other site 1085623001143 binding surface 1085623001144 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 1085623001145 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1085623001146 putative substrate translocation pore; other site 1085623001147 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 1085623001148 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 1085623001149 active site 1085623001150 metal binding site [ion binding]; metal-binding site 1085623001151 nudix motif; other site 1085623001152 beta-carotene 15,15'-monooxygenase, Brp/Blh family; Region: blh_monoox; TIGR03753 1085623001153 lycopene cyclase; Region: lycopene_cycl; TIGR01789 1085623001154 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1085623001155 active site lid residues [active] 1085623001156 substrate binding pocket [chemical binding]; other site 1085623001157 catalytic residues [active] 1085623001158 substrate-Mg2+ binding site; other site 1085623001159 aspartate-rich region 1; other site 1085623001160 aspartate-rich region 2; other site 1085623001161 phytoene desaturase; Region: crtI_fam; TIGR02734 1085623001162 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1085623001163 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1085623001164 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 1085623001165 substrate binding pocket [chemical binding]; other site 1085623001166 substrate-Mg2+ binding site; other site 1085623001167 aspartate-rich region 1; other site 1085623001168 aspartate-rich region 2; other site 1085623001169 Bacteriorhodopsin-like protein; Region: Bac_rhodopsin; pfam01036 1085623001170 Bacteriorhodopsin-like protein; Region: Bac_rhodopsin; smart01021 1085623001171 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1085623001172 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1085623001173 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1085623001174 putative active site [active] 1085623001175 putative substrate binding site [chemical binding]; other site 1085623001176 putative cosubstrate binding site; other site 1085623001177 catalytic site [active] 1085623001178 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 1085623001179 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1085623001180 NAD(P) binding site [chemical binding]; other site 1085623001181 homotetramer interface [polypeptide binding]; other site 1085623001182 homodimer interface [polypeptide binding]; other site 1085623001183 active site 1085623001184 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1085623001185 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 1085623001186 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1085623001187 catalytic residue [active] 1085623001188 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1085623001189 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 1085623001190 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1085623001191 Phasin protein; Region: Phasin_2; cl11491 1085623001192 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 1085623001193 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 1085623001194 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 1085623001195 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 1085623001196 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1085623001197 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 1085623001198 Transglycosylase; Region: Transgly; pfam00912 1085623001199 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1085623001200 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1085623001201 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1085623001202 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 1085623001203 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1085623001204 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1085623001205 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1085623001206 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1085623001207 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1085623001208 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1085623001209 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1085623001210 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1085623001211 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1085623001212 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 1085623001213 tetramer interface [polypeptide binding]; other site 1085623001214 catalytic Zn binding site [ion binding]; other site 1085623001215 NADP binding site [chemical binding]; other site 1085623001216 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 1085623001217 active site 1085623001218 putative catalytic site [active] 1085623001219 DNA binding site [nucleotide binding] 1085623001220 putative phosphate binding site [ion binding]; other site 1085623001221 metal binding site A [ion binding]; metal-binding site 1085623001222 AP binding site [nucleotide binding]; other site 1085623001223 metal binding site B [ion binding]; metal-binding site 1085623001224 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1085623001225 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1085623001226 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 1085623001227 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 1085623001228 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1085623001229 Walker A/P-loop; other site 1085623001230 ATP binding site [chemical binding]; other site 1085623001231 Q-loop/lid; other site 1085623001232 ABC transporter signature motif; other site 1085623001233 Walker B; other site 1085623001234 D-loop; other site 1085623001235 H-loop/switch region; other site 1085623001236 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1085623001237 FtsX-like permease family; Region: FtsX; pfam02687 1085623001238 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1085623001239 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1085623001240 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623001241 active site 1085623001242 phosphorylation site [posttranslational modification] 1085623001243 intermolecular recognition site; other site 1085623001244 dimerization interface [polypeptide binding]; other site 1085623001245 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1085623001246 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1085623001247 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1085623001248 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1085623001249 phosphopeptide binding site; other site 1085623001250 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1085623001251 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 1085623001252 active site 1085623001253 motif I; other site 1085623001254 motif II; other site 1085623001255 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 1085623001256 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 1085623001257 active site 1085623001258 catalytic motif [active] 1085623001259 Zn binding site [ion binding]; other site 1085623001260 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 1085623001261 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1085623001262 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1085623001263 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 1085623001264 protein binding site [polypeptide binding]; other site 1085623001265 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 1085623001266 Domain interface; other site 1085623001267 Peptide binding site; other site 1085623001268 Active site tetrad [active] 1085623001269 elongation factor P; Provisional; Region: PRK04542 1085623001270 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1085623001271 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 1085623001272 RNA binding site [nucleotide binding]; other site 1085623001273 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 1085623001274 RNA binding site [nucleotide binding]; other site 1085623001275 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 1085623001276 cyclase homology domain; Region: CHD; cd07302 1085623001277 nucleotidyl binding site; other site 1085623001278 metal binding site [ion binding]; metal-binding site 1085623001279 dimer interface [polypeptide binding]; other site 1085623001280 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1085623001281 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 1085623001282 inhibitor-cofactor binding pocket; inhibition site 1085623001283 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1085623001284 catalytic residue [active] 1085623001285 aspartate carbamoyltransferase; Provisional; Region: PRK08192 1085623001286 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1085623001287 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1085623001288 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1085623001289 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1085623001290 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1085623001291 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1085623001292 HlyD family secretion protein; Region: HlyD_3; pfam13437 1085623001293 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1085623001294 Protein export membrane protein; Region: SecD_SecF; cl14618 1085623001295 Protein export membrane protein; Region: SecD_SecF; cl14618 1085623001296 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 1085623001297 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1085623001298 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1085623001299 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 1085623001300 dimer interface [polypeptide binding]; other site 1085623001301 phosphorylation site [posttranslational modification] 1085623001302 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 1085623001303 ATP binding site [chemical binding]; other site 1085623001304 G-X-G motif; other site 1085623001305 Response regulator receiver domain; Region: Response_reg; pfam00072 1085623001306 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623001307 active site 1085623001308 phosphorylation site [posttranslational modification] 1085623001309 intermolecular recognition site; other site 1085623001310 dimerization interface [polypeptide binding]; other site 1085623001311 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 1085623001312 putative binding surface; other site 1085623001313 active site 1085623001314 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1085623001315 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 1085623001316 CAP-like domain; other site 1085623001317 active site 1085623001318 primary dimer interface [polypeptide binding]; other site 1085623001319 FOG: CBS domain [General function prediction only]; Region: COG0517 1085623001320 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 1085623001321 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1085623001322 FtsX-like permease family; Region: FtsX; pfam02687 1085623001323 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1085623001324 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1085623001325 Walker A/P-loop; other site 1085623001326 ATP binding site [chemical binding]; other site 1085623001327 Q-loop/lid; other site 1085623001328 ABC transporter signature motif; other site 1085623001329 Walker B; other site 1085623001330 D-loop; other site 1085623001331 H-loop/switch region; other site 1085623001332 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1085623001333 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 1085623001334 RimK-like ATP-grasp domain; Region: RimK; pfam08443 1085623001335 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 1085623001336 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1085623001337 putative active site [active] 1085623001338 Zn binding site [ion binding]; other site 1085623001339 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1085623001340 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 1085623001341 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 1085623001342 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 1085623001343 NAD(P) binding site [chemical binding]; other site 1085623001344 catalytic residues [active] 1085623001345 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1085623001346 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 1085623001347 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 1085623001348 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 1085623001349 inhibitor-cofactor binding pocket; inhibition site 1085623001350 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1085623001351 catalytic residue [active] 1085623001352 HDOD domain; Region: HDOD; pfam08668 1085623001353 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1085623001354 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1085623001355 glutamine binding [chemical binding]; other site 1085623001356 catalytic triad [active] 1085623001357 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1085623001358 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1085623001359 active site 1085623001360 HIGH motif; other site 1085623001361 dimer interface [polypeptide binding]; other site 1085623001362 KMSKS motif; other site 1085623001363 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1085623001364 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 1085623001365 substrate binding site [chemical binding]; other site 1085623001366 hexamer interface [polypeptide binding]; other site 1085623001367 metal binding site [ion binding]; metal-binding site 1085623001368 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 1085623001369 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 1085623001370 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623001371 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623001372 metal binding site [ion binding]; metal-binding site 1085623001373 active site 1085623001374 I-site; other site 1085623001375 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 1085623001376 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1085623001377 cell division protein DamX; Validated; Region: PRK10905 1085623001378 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1085623001379 active site 1085623001380 dimer interface [polypeptide binding]; other site 1085623001381 metal binding site [ion binding]; metal-binding site 1085623001382 shikimate kinase; Reviewed; Region: aroK; PRK00131 1085623001383 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 1085623001384 ADP binding site [chemical binding]; other site 1085623001385 magnesium binding site [ion binding]; other site 1085623001386 putative shikimate binding site; other site 1085623001387 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1085623001388 Secretin and TonB N terminus short domain; Region: STN; pfam07660 1085623001389 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1085623001390 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1085623001391 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 1085623001392 Pilus assembly protein, PilP; Region: PilP; pfam04351 1085623001393 Pilus assembly protein, PilO; Region: PilO; pfam04350 1085623001394 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 1085623001395 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1085623001396 Competence protein A; Region: Competence_A; pfam11104 1085623001397 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1085623001398 nucleotide binding site [chemical binding]; other site 1085623001399 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 1085623001400 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1085623001401 Transglycosylase; Region: Transgly; pfam00912 1085623001402 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1085623001403 malate dehydrogenase; Provisional; Region: PRK13529 1085623001404 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1085623001405 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 1085623001406 NAD(P) binding site [chemical binding]; other site 1085623001407 N-acetylglutamate synthase; Validated; Region: PRK05279 1085623001408 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 1085623001409 putative feedback inhibition sensing region; other site 1085623001410 putative nucleotide binding site [chemical binding]; other site 1085623001411 putative substrate binding site [chemical binding]; other site 1085623001412 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1085623001413 Coenzyme A binding pocket [chemical binding]; other site 1085623001414 argininosuccinate lyase; Provisional; Region: PRK04833 1085623001415 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1085623001416 active sites [active] 1085623001417 tetramer interface [polypeptide binding]; other site 1085623001418 argininosuccinate synthase; Provisional; Region: PRK13820 1085623001419 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 1085623001420 ANP binding site [chemical binding]; other site 1085623001421 Substrate Binding Site II [chemical binding]; other site 1085623001422 Substrate Binding Site I [chemical binding]; other site 1085623001423 ornithine carbamoyltransferase; Provisional; Region: PRK14805 1085623001424 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1085623001425 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1085623001426 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 1085623001427 nucleotide binding site [chemical binding]; other site 1085623001428 substrate binding site [chemical binding]; other site 1085623001429 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1085623001430 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1085623001431 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 1085623001432 active site 1085623001433 dimer interfaces [polypeptide binding]; other site 1085623001434 catalytic residues [active] 1085623001435 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1085623001436 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1085623001437 dimer interface [polypeptide binding]; other site 1085623001438 putative CheW interface [polypeptide binding]; other site 1085623001439 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 1085623001440 dimer interface [polypeptide binding]; other site 1085623001441 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 1085623001442 dimer interface [polypeptide binding]; other site 1085623001443 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1085623001444 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623001445 active site 1085623001446 phosphorylation site [posttranslational modification] 1085623001447 intermolecular recognition site; other site 1085623001448 dimerization interface [polypeptide binding]; other site 1085623001449 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 1085623001450 DNA binding site [nucleotide binding] 1085623001451 two-component sensor protein; Provisional; Region: cpxA; PRK09470 1085623001452 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 1085623001453 dimerization interface [polypeptide binding]; other site 1085623001454 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 1085623001455 dimer interface [polypeptide binding]; other site 1085623001456 phosphorylation site [posttranslational modification] 1085623001457 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 1085623001458 ATP binding site [chemical binding]; other site 1085623001459 Mg2+ binding site [ion binding]; other site 1085623001460 G-X-G motif; other site 1085623001461 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1085623001462 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1085623001463 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1085623001464 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623001465 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623001466 metal binding site [ion binding]; metal-binding site 1085623001467 active site 1085623001468 I-site; other site 1085623001469 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 1085623001470 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1085623001471 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1085623001472 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1085623001473 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1085623001474 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 1085623001475 SecA binding site; other site 1085623001476 Preprotein binding site; other site 1085623001477 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 1085623001478 GSH binding site [chemical binding]; other site 1085623001479 catalytic residues [active] 1085623001480 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 1085623001481 active site residue [active] 1085623001482 phosphoglyceromutase; Provisional; Region: PRK05434 1085623001483 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 1085623001484 Protein of unknown function (DUF3573); Region: DUF3573; pfam12097 1085623001485 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1085623001486 Peptidase family M23; Region: Peptidase_M23; pfam01551 1085623001487 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1085623001488 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1085623001489 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 1085623001490 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 1085623001491 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1085623001492 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 1085623001493 Cl- selectivity filter; other site 1085623001494 Cl- binding residues [ion binding]; other site 1085623001495 pore gating glutamate residue; other site 1085623001496 dimer interface [polypeptide binding]; other site 1085623001497 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1085623001498 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1085623001499 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 1085623001500 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1085623001501 sec-independent translocase; Provisional; Region: PRK01770 1085623001502 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 1085623001503 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1085623001504 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 1085623001505 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1085623001506 active site 1085623001507 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1085623001508 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1085623001509 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623001510 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623001511 metal binding site [ion binding]; metal-binding site 1085623001512 active site 1085623001513 I-site; other site 1085623001514 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1085623001515 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1085623001516 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623001517 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623001518 metal binding site [ion binding]; metal-binding site 1085623001519 active site 1085623001520 I-site; other site 1085623001521 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 1085623001522 dimer interface [polypeptide binding]; other site 1085623001523 allosteric magnesium binding site [ion binding]; other site 1085623001524 active site 1085623001525 aspartate-rich active site metal binding site; other site 1085623001526 Schiff base residues; other site 1085623001527 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 1085623001528 CheB methylesterase; Region: CheB_methylest; pfam01339 1085623001529 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1085623001530 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1085623001531 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1085623001532 PAS domain; Region: PAS_10; pfam13596 1085623001533 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 1085623001534 PAS domain; Region: PAS_9; pfam13426 1085623001535 putative active site [active] 1085623001536 heme pocket [chemical binding]; other site 1085623001537 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623001538 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623001539 metal binding site [ion binding]; metal-binding site 1085623001540 active site 1085623001541 I-site; other site 1085623001542 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 1085623001543 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1085623001544 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1085623001545 active site 1085623001546 ATP-binding site [chemical binding]; other site 1085623001547 pantoate-binding site; other site 1085623001548 HXXH motif; other site 1085623001549 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 1085623001550 oligomerization interface [polypeptide binding]; other site 1085623001551 active site 1085623001552 metal binding site [ion binding]; metal-binding site 1085623001553 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 1085623001554 catalytic center binding site [active] 1085623001555 ATP binding site [chemical binding]; other site 1085623001556 poly(A) polymerase; Region: pcnB; TIGR01942 1085623001557 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1085623001558 active site 1085623001559 NTP binding site [chemical binding]; other site 1085623001560 metal binding triad [ion binding]; metal-binding site 1085623001561 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1085623001562 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1085623001563 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 1085623001564 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 1085623001565 active site 1085623001566 nucleotide binding site [chemical binding]; other site 1085623001567 HIGH motif; other site 1085623001568 KMSKS motif; other site 1085623001569 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1085623001570 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1085623001571 aminopeptidase B; Provisional; Region: PRK05015 1085623001572 Peptidase; Region: DUF3663; pfam12404 1085623001573 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 1085623001574 interface (dimer of trimers) [polypeptide binding]; other site 1085623001575 Substrate-binding/catalytic site; other site 1085623001576 Zn-binding sites [ion binding]; other site 1085623001577 transcriptional regulator MirA; Provisional; Region: PRK15043 1085623001578 MarC family integral membrane protein; Region: MarC; cl00919 1085623001579 Protein of unknown function (DUF416); Region: DUF416; pfam04222 1085623001580 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1085623001581 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 1085623001582 S-adenosylmethionine binding site [chemical binding]; other site 1085623001583 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1085623001584 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1085623001585 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 1085623001586 P loop; other site 1085623001587 GTP binding site [chemical binding]; other site 1085623001588 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1085623001589 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1085623001590 Walker A/P-loop; other site 1085623001591 ATP binding site [chemical binding]; other site 1085623001592 Q-loop/lid; other site 1085623001593 ABC transporter signature motif; other site 1085623001594 Walker B; other site 1085623001595 D-loop; other site 1085623001596 H-loop/switch region; other site 1085623001597 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 1085623001598 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1085623001599 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 1085623001600 EAL domain; Region: EAL; pfam00563 1085623001601 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 1085623001602 EAL domain; Region: EAL; pfam00563 1085623001603 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 1085623001604 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 1085623001605 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1085623001606 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1085623001607 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 1085623001608 DNA binding residues [nucleotide binding] 1085623001609 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1085623001610 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1085623001611 Coenzyme A binding pocket [chemical binding]; other site 1085623001612 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 1085623001613 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 1085623001614 putative active site [active] 1085623001615 dimerization interface [polypeptide binding]; other site 1085623001616 putative tRNAtyr binding site [nucleotide binding]; other site 1085623001617 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1085623001618 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 1085623001619 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 1085623001620 dimerization interface [polypeptide binding]; other site 1085623001621 DNA binding site [nucleotide binding] 1085623001622 corepressor binding sites; other site 1085623001623 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 1085623001624 FAD binding site [chemical binding]; other site 1085623001625 hypothetical protein; Reviewed; Region: PRK01637 1085623001626 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1085623001627 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 1085623001628 active site 1085623001629 FMN binding site [chemical binding]; other site 1085623001630 substrate binding site [chemical binding]; other site 1085623001631 3Fe-4S cluster binding site [ion binding]; other site 1085623001632 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 1085623001633 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 1085623001634 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 1085623001635 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1085623001636 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1085623001637 dimer interface [polypeptide binding]; other site 1085623001638 putative CheW interface [polypeptide binding]; other site 1085623001639 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 1085623001640 putative DNA-binding cleft [nucleotide binding]; other site 1085623001641 putative DNA clevage site; other site 1085623001642 molecular lever; other site 1085623001643 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 1085623001644 putative active site [active] 1085623001645 Ap4A binding site [chemical binding]; other site 1085623001646 nudix motif; other site 1085623001647 putative metal binding site [ion binding]; other site 1085623001648 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 1085623001649 GAF domain; Region: GAF; pfam01590 1085623001650 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1085623001651 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1085623001652 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1085623001653 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1085623001654 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1085623001655 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1085623001656 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 1085623001657 dimerization interface [polypeptide binding]; other site 1085623001658 active site 1085623001659 Response regulator receiver domain; Region: Response_reg; pfam00072 1085623001660 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623001661 active site 1085623001662 phosphorylation site [posttranslational modification] 1085623001663 intermolecular recognition site; other site 1085623001664 dimerization interface [polypeptide binding]; other site 1085623001665 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 1085623001666 PAS domain; Region: PAS_9; pfam13426 1085623001667 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623001668 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623001669 metal binding site [ion binding]; metal-binding site 1085623001670 active site 1085623001671 I-site; other site 1085623001672 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 1085623001673 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1085623001674 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1085623001675 active site 1085623001676 ATP-dependent helicase HepA; Validated; Region: PRK04914 1085623001677 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 1085623001678 ATP binding site [chemical binding]; other site 1085623001679 putative Mg++ binding site [ion binding]; other site 1085623001680 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 1085623001681 nucleotide binding region [chemical binding]; other site 1085623001682 ATP-binding site [chemical binding]; other site 1085623001683 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1085623001684 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1085623001685 putative active site [active] 1085623001686 PhoH-like protein; Region: PhoH; pfam02562 1085623001687 Response regulator receiver domain; Region: Response_reg; pfam00072 1085623001688 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623001689 active site 1085623001690 phosphorylation site [posttranslational modification] 1085623001691 intermolecular recognition site; other site 1085623001692 dimerization interface [polypeptide binding]; other site 1085623001693 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623001694 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623001695 metal binding site [ion binding]; metal-binding site 1085623001696 active site 1085623001697 I-site; other site 1085623001698 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1085623001699 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1085623001700 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 1085623001701 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 1085623001702 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 1085623001703 putative substrate translocation pore; other site 1085623001704 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 1085623001705 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623001706 active site 1085623001707 phosphorylation site [posttranslational modification] 1085623001708 intermolecular recognition site; other site 1085623001709 dimerization interface [polypeptide binding]; other site 1085623001710 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623001711 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623001712 metal binding site [ion binding]; metal-binding site 1085623001713 active site 1085623001714 I-site; other site 1085623001715 PAS domain S-box; Region: sensory_box; TIGR00229 1085623001716 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 1085623001717 putative active site [active] 1085623001718 heme pocket [chemical binding]; other site 1085623001719 PAS fold; Region: PAS; pfam00989 1085623001720 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1085623001721 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 1085623001722 putative active site [active] 1085623001723 heme pocket [chemical binding]; other site 1085623001724 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 1085623001725 dimer interface [polypeptide binding]; other site 1085623001726 phosphorylation site [posttranslational modification] 1085623001727 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 1085623001728 ATP binding site [chemical binding]; other site 1085623001729 Mg2+ binding site [ion binding]; other site 1085623001730 G-X-G motif; other site 1085623001731 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1085623001732 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623001733 active site 1085623001734 phosphorylation site [posttranslational modification] 1085623001735 intermolecular recognition site; other site 1085623001736 dimerization interface [polypeptide binding]; other site 1085623001737 Hpt domain; Region: Hpt; pfam01627 1085623001738 enoyl-CoA hydratase; Provisional; Region: PRK06142 1085623001739 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 1085623001740 substrate binding site [chemical binding]; other site 1085623001741 oxyanion hole (OAH) forming residues; other site 1085623001742 trimer interface [polypeptide binding]; other site 1085623001743 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 1085623001744 Uncharacterized conserved protein [Function unknown]; Region: COG3268 1085623001745 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1085623001746 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 1085623001747 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1085623001748 homodimer interface [polypeptide binding]; other site 1085623001749 catalytic residue [active] 1085623001750 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1085623001751 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1085623001752 HlyD family secretion protein; Region: HlyD_3; pfam13437 1085623001753 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 1085623001754 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 1085623001755 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1085623001756 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1085623001757 G1 box; other site 1085623001758 putative GEF interaction site [polypeptide binding]; other site 1085623001759 GTP/Mg2+ binding site [chemical binding]; other site 1085623001760 Switch I region; other site 1085623001761 G2 box; other site 1085623001762 G3 box; other site 1085623001763 Switch II region; other site 1085623001764 G4 box; other site 1085623001765 G5 box; other site 1085623001766 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 1085623001767 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 1085623001768 YceI-like domain; Region: YceI; pfam04264 1085623001769 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1085623001770 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1085623001771 glutamine synthetase; Provisional; Region: glnA; PRK09469 1085623001772 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1085623001773 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1085623001774 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1085623001775 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 1085623001776 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 1085623001777 putative active site [active] 1085623001778 heme pocket [chemical binding]; other site 1085623001779 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 1085623001780 dimer interface [polypeptide binding]; other site 1085623001781 phosphorylation site [posttranslational modification] 1085623001782 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 1085623001783 ATP binding site [chemical binding]; other site 1085623001784 Mg2+ binding site [ion binding]; other site 1085623001785 G-X-G motif; other site 1085623001786 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 1085623001787 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623001788 active site 1085623001789 phosphorylation site [posttranslational modification] 1085623001790 intermolecular recognition site; other site 1085623001791 dimerization interface [polypeptide binding]; other site 1085623001792 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 1085623001793 Walker A motif; other site 1085623001794 ATP binding site [chemical binding]; other site 1085623001795 Walker B motif; other site 1085623001796 arginine finger; other site 1085623001797 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1085623001798 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1085623001799 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1085623001800 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1085623001801 GAF domain; Region: GAF_3; pfam13492 1085623001802 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623001803 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623001804 metal binding site [ion binding]; metal-binding site 1085623001805 active site 1085623001806 I-site; other site 1085623001807 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 1085623001808 Lysine efflux permease [General function prediction only]; Region: COG1279 1085623001809 RDD family; Region: RDD; pfam06271 1085623001810 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 1085623001811 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 1085623001812 S-adenosylmethionine binding site [chemical binding]; other site 1085623001813 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 1085623001814 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1085623001815 mce related protein; Region: MCE; pfam02470 1085623001816 mce related protein; Region: MCE; pfam02470 1085623001817 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1085623001818 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1085623001819 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1085623001820 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1085623001821 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 1085623001822 Divalent cation transporter; Region: MgtE; cl00786 1085623001823 glycerate dehydrogenase; Provisional; Region: PRK06932 1085623001824 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1085623001825 putative ligand binding site [chemical binding]; other site 1085623001826 putative NAD binding site [chemical binding]; other site 1085623001827 catalytic site [active] 1085623001828 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 1085623001829 Domain of unknown function (DUF305); Region: DUF305; pfam03713 1085623001830 glutathione reductase; Validated; Region: PRK06116 1085623001831 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1085623001832 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1085623001833 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1085623001834 oligopeptidase A; Provisional; Region: PRK10911 1085623001835 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1085623001836 active site 1085623001837 Zn binding site [ion binding]; other site 1085623001838 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 1085623001839 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1085623001840 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 1085623001841 S-adenosylmethionine binding site [chemical binding]; other site 1085623001842 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 1085623001843 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1085623001844 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1085623001845 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1085623001846 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 1085623001847 putative heme binding pocket [chemical binding]; other site 1085623001848 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 1085623001849 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 1085623001850 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1085623001851 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1085623001852 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 1085623001853 ATP binding site [chemical binding]; other site 1085623001854 Mg++ binding site [ion binding]; other site 1085623001855 motif III; other site 1085623001856 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 1085623001857 nucleotide binding region [chemical binding]; other site 1085623001858 ATP-binding site [chemical binding]; other site 1085623001859 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 1085623001860 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1085623001861 catalytic residues [active] 1085623001862 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1085623001863 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1085623001864 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 1085623001865 RNA binding site [nucleotide binding]; other site 1085623001866 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 1085623001867 multimer interface [polypeptide binding]; other site 1085623001868 Walker A motif; other site 1085623001869 ATP binding site [chemical binding]; other site 1085623001870 Walker B motif; other site 1085623001871 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 1085623001872 UbiA prenyltransferase family; Region: UbiA; pfam01040 1085623001873 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 1085623001874 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1085623001875 metal binding site [ion binding]; metal-binding site 1085623001876 putative dimer interface [polypeptide binding]; other site 1085623001877 AIR carboxylase; Region: AIRC; pfam00731 1085623001878 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1085623001879 ATP-grasp domain; Region: ATP-grasp; pfam02222 1085623001880 Heme NO binding; Region: HNOB; pfam07700 1085623001881 PAS fold; Region: PAS; pfam00989 1085623001882 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 1085623001883 putative active site [active] 1085623001884 heme pocket [chemical binding]; other site 1085623001885 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623001886 active site 1085623001887 I-site; other site 1085623001888 metal binding site [ion binding]; metal-binding site 1085623001889 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 1085623001890 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 1085623001891 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 1085623001892 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1085623001893 Penicillinase repressor; Region: Pencillinase_R; pfam03965 1085623001894 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1085623001895 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1085623001896 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1085623001897 dimerization interface [polypeptide binding]; other site 1085623001898 DPS ferroxidase diiron center [ion binding]; other site 1085623001899 ion pore; other site 1085623001900 Protein of unknown function (DUF962); Region: DUF962; pfam06127 1085623001901 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1085623001902 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 1085623001903 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 1085623001904 binding surface 1085623001905 TPR motif; other site 1085623001906 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 1085623001907 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1085623001908 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 1085623001909 GDP-binding site [chemical binding]; other site 1085623001910 ACT binding site; other site 1085623001911 IMP binding site; other site 1085623001912 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1085623001913 ALDH subfamily: Coniferyl aldehyde dehydrogenase, ALDH families 3, 13, and 14, and other related proteins; Region: ALDH_F3-13-14_CALDH-like; cd07087 1085623001914 NAD(P) binding site [chemical binding]; other site 1085623001915 catalytic residues [active] 1085623001916 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 1085623001917 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1085623001918 putative metal binding site [ion binding]; other site 1085623001919 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1085623001920 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1085623001921 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 1085623001922 amidase catalytic site [active] 1085623001923 Zn binding residues [ion binding]; other site 1085623001924 substrate binding site [chemical binding]; other site 1085623001925 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1085623001926 Beta-lactamase; Region: Beta-lactamase; cl17358 1085623001927 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1085623001928 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 1085623001929 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623001930 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623001931 metal binding site [ion binding]; metal-binding site 1085623001932 active site 1085623001933 I-site; other site 1085623001934 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1085623001935 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1085623001936 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_2; cd06239 1085623001937 putative active site [active] 1085623001938 Zn binding site [ion binding]; other site 1085623001939 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1085623001940 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 1085623001941 putative active site [active] 1085623001942 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u1; cd11493 1085623001943 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1085623001944 Na binding site [ion binding]; other site 1085623001945 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1085623001946 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1085623001947 active site 1085623001948 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1085623001949 substrate binding site [chemical binding]; other site 1085623001950 catalytic residues [active] 1085623001951 dimer interface [polypeptide binding]; other site 1085623001952 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 1085623001953 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1085623001954 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 1085623001955 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 1085623001956 putative metal binding site [ion binding]; other site 1085623001957 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1085623001958 Interdomain contacts; other site 1085623001959 FMN reductase; Validated; Region: fre; PRK08051 1085623001960 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 1085623001961 FAD binding pocket [chemical binding]; other site 1085623001962 FAD binding motif [chemical binding]; other site 1085623001963 phosphate binding motif [ion binding]; other site 1085623001964 beta-alpha-beta structure motif; other site 1085623001965 NAD binding pocket [chemical binding]; other site 1085623001966 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1085623001967 exoribonuclease R; Provisional; Region: PRK11642 1085623001968 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1085623001969 RNB domain; Region: RNB; pfam00773 1085623001970 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 1085623001971 RNA binding site [nucleotide binding]; other site 1085623001972 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1085623001973 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1085623001974 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1085623001975 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1085623001976 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1085623001977 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1085623001978 RNA binding site [nucleotide binding]; other site 1085623001979 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1085623001980 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1085623001981 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1085623001982 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1085623001983 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1085623001984 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1085623001985 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1085623001986 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1085623001987 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 1085623001988 5S rRNA interface [nucleotide binding]; other site 1085623001989 23S rRNA interface [nucleotide binding]; other site 1085623001990 L5 interface [polypeptide binding]; other site 1085623001991 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1085623001992 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1085623001993 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1085623001994 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 1085623001995 23S rRNA binding site [nucleotide binding]; other site 1085623001996 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1085623001997 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1085623001998 SecY translocase; Region: SecY; pfam00344 1085623001999 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1085623002000 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1085623002001 30S ribosomal protein S11; Validated; Region: PRK05309 1085623002002 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1085623002003 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1085623002004 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 1085623002005 RNA binding surface [nucleotide binding]; other site 1085623002006 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1085623002007 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1085623002008 alphaNTD homodimer interface [polypeptide binding]; other site 1085623002009 alphaNTD - beta interaction site [polypeptide binding]; other site 1085623002010 alphaNTD - beta' interaction site [polypeptide binding]; other site 1085623002011 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1085623002012 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1085623002013 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1085623002014 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 1085623002015 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1085623002016 FAD binding domain; Region: FAD_binding_4; pfam01565 1085623002017 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1085623002018 Biotin operon repressor [Transcription]; Region: BirA; COG1654 1085623002019 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1085623002020 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1085623002021 Type III pantothenate kinase; Region: Pan_kinase; cl17198 1085623002022 elongation factor Tu; Reviewed; Region: PRK00049 1085623002023 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1085623002024 G1 box; other site 1085623002025 GEF interaction site [polypeptide binding]; other site 1085623002026 GTP/Mg2+ binding site [chemical binding]; other site 1085623002027 Switch I region; other site 1085623002028 G2 box; other site 1085623002029 G3 box; other site 1085623002030 Switch II region; other site 1085623002031 G4 box; other site 1085623002032 G5 box; other site 1085623002033 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 1085623002034 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 1085623002035 Antibiotic Binding Site [chemical binding]; other site 1085623002036 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1085623002037 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1085623002038 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 1085623002039 putative dimer interface [polypeptide binding]; other site 1085623002040 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1085623002041 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1085623002042 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 1085623002043 dimerization interface [polypeptide binding]; other site 1085623002044 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 1085623002045 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1085623002046 active site 1085623002047 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1085623002048 aspartate racemase; Region: asp_race; TIGR00035 1085623002049 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1085623002050 dimer interface [polypeptide binding]; other site 1085623002051 putative CheW interface [polypeptide binding]; other site 1085623002052 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 1085623002053 Predicted permeases [General function prediction only]; Region: COG0679 1085623002054 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 1085623002055 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1085623002056 acyl-activating enzyme (AAE) consensus motif; other site 1085623002057 putative AMP binding site [chemical binding]; other site 1085623002058 putative active site [active] 1085623002059 putative CoA binding site [chemical binding]; other site 1085623002060 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1085623002061 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1085623002062 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1085623002063 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 1085623002064 substrate binding site [chemical binding]; other site 1085623002065 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1085623002066 substrate binding site [chemical binding]; other site 1085623002067 ligand binding site [chemical binding]; other site 1085623002068 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1085623002069 aspartate kinase III; Validated; Region: PRK09084 1085623002070 AAK_AKiii-LysC-EC: Amino Acid Kinase Superfamily (AAK), AKiii-LysC-EC: this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKIII. AKIII is a monofunctional class enzyme (LysC) found in some...; Region: AAK_AKiii-LysC-EC; cd04258 1085623002071 nucleotide binding site [chemical binding]; other site 1085623002072 putative catalytic residues [active] 1085623002073 aspartate binding site [chemical binding]; other site 1085623002074 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 1085623002075 lysine allosteric regulatory site; other site 1085623002076 dimer interface [polypeptide binding]; other site 1085623002077 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 1085623002078 dimer interface [polypeptide binding]; other site 1085623002079 HAMP domain; Region: HAMP; pfam00672 1085623002080 dimerization interface [polypeptide binding]; other site 1085623002081 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1085623002082 dimer interface [polypeptide binding]; other site 1085623002083 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1085623002084 putative CheW interface [polypeptide binding]; other site 1085623002085 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1085623002086 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1085623002087 active site 1085623002088 metal binding site [ion binding]; metal-binding site 1085623002089 Protein of unknown function (DUF525); Region: DUF525; cl01119 1085623002090 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1085623002091 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 1085623002092 S-adenosylmethionine binding site [chemical binding]; other site 1085623002093 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1085623002094 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1085623002095 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1085623002096 SurA N-terminal domain; Region: SurA_N; pfam09312 1085623002097 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1085623002098 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1085623002099 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 1085623002100 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1085623002101 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 1085623002102 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1085623002103 putative metal binding site [ion binding]; other site 1085623002104 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 1085623002105 HSP70 interaction site [polypeptide binding]; other site 1085623002106 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1085623002107 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 1085623002108 active site 1085623002109 DNA binding site [nucleotide binding] 1085623002110 Int/Topo IB signature motif; other site 1085623002111 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 1085623002112 dimerization domain [polypeptide binding]; other site 1085623002113 dimer interface [polypeptide binding]; other site 1085623002114 catalytic residues [active] 1085623002115 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1085623002116 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1085623002117 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1085623002118 DNA binding residues [nucleotide binding] 1085623002119 Conserved TM helix; Region: TM_helix; pfam05552 1085623002120 Conserved TM helix; Region: TM_helix; pfam05552 1085623002121 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1085623002122 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1085623002123 ligand binding site [chemical binding]; other site 1085623002124 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623002125 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623002126 metal binding site [ion binding]; metal-binding site 1085623002127 active site 1085623002128 I-site; other site 1085623002129 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 1085623002130 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 1085623002131 active site 1085623002132 catalytic site [active] 1085623002133 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 1085623002134 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 1085623002135 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 1085623002136 metal ion-dependent adhesion site (MIDAS); other site 1085623002137 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1085623002138 ligand binding site [chemical binding]; other site 1085623002139 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 1085623002140 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623002141 active site 1085623002142 phosphorylation site [posttranslational modification] 1085623002143 intermolecular recognition site; other site 1085623002144 dimerization interface [polypeptide binding]; other site 1085623002145 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 1085623002146 DNA binding site [nucleotide binding] 1085623002147 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 1085623002148 DOMON-like type 9 carbohydrate binding module at the N-terminus of bacterial sensor histidine kinases; Region: CBM9_like_HisKa; cd09622 1085623002149 putative ligand binding site [chemical binding]; other site 1085623002150 HAMP domain; Region: HAMP; pfam00672 1085623002151 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 1085623002152 dimer interface [polypeptide binding]; other site 1085623002153 phosphorylation site [posttranslational modification] 1085623002154 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 1085623002155 ATP binding site [chemical binding]; other site 1085623002156 Mg2+ binding site [ion binding]; other site 1085623002157 G-X-G motif; other site 1085623002158 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1085623002159 PAS domain; Region: PAS_9; pfam13426 1085623002160 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 1085623002161 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1085623002162 putative active site [active] 1085623002163 heme pocket [chemical binding]; other site 1085623002164 PAS domain; Region: PAS_8; pfam13188 1085623002165 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1085623002166 DHH family; Region: DHH; pfam01368 1085623002167 DHHA1 domain; Region: DHHA1; pfam02272 1085623002168 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1085623002169 Recombination protein O N terminal; Region: RecO_N; pfam11967 1085623002170 Recombination protein O C terminal; Region: RecO_C; pfam02565 1085623002171 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 1085623002172 active site 1085623002173 hydrophilic channel; other site 1085623002174 dimerization interface [polypeptide binding]; other site 1085623002175 catalytic residues [active] 1085623002176 active site lid [active] 1085623002177 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1085623002178 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1085623002179 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 1085623002180 S-adenosylmethionine binding site [chemical binding]; other site 1085623002181 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 1085623002182 HD domain; Region: HD_4; pfam13328 1085623002183 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1085623002184 synthetase active site [active] 1085623002185 NTP binding site [chemical binding]; other site 1085623002186 metal binding site [ion binding]; metal-binding site 1085623002187 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 1085623002188 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1085623002189 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 1085623002190 homodimer interface [polypeptide binding]; other site 1085623002191 active site 1085623002192 putative chemical substrate binding site [chemical binding]; other site 1085623002193 metal binding site [ion binding]; metal-binding site 1085623002194 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 1085623002195 23S rRNA interface [nucleotide binding]; other site 1085623002196 L3 interface [polypeptide binding]; other site 1085623002197 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1085623002198 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1085623002199 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 1085623002200 [2Fe-2S] cluster binding site [ion binding]; other site 1085623002201 cytochrome b; Provisional; Region: CYTB; MTH00145 1085623002202 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 1085623002203 Qi binding site; other site 1085623002204 intrachain domain interface; other site 1085623002205 interchain domain interface [polypeptide binding]; other site 1085623002206 heme bH binding site [chemical binding]; other site 1085623002207 heme bL binding site [chemical binding]; other site 1085623002208 Qo binding site; other site 1085623002209 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 1085623002210 interchain domain interface [polypeptide binding]; other site 1085623002211 intrachain domain interface; other site 1085623002212 Qi binding site; other site 1085623002213 Qo binding site; other site 1085623002214 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1085623002215 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1085623002216 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 1085623002217 C-terminal domain interface [polypeptide binding]; other site 1085623002218 putative GSH binding site (G-site) [chemical binding]; other site 1085623002219 dimer interface [polypeptide binding]; other site 1085623002220 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1085623002221 dimer interface [polypeptide binding]; other site 1085623002222 N-terminal domain interface [polypeptide binding]; other site 1085623002223 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1085623002224 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 1085623002225 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 1085623002226 outer membrane lipoprotein; Provisional; Region: PRK11023 1085623002227 BON domain; Region: BON; pfam04972 1085623002228 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 1085623002229 dimer interface [polypeptide binding]; other site 1085623002230 active site 1085623002231 hypothetical protein; Reviewed; Region: PRK12497 1085623002232 LppC putative lipoprotein; Region: LppC; pfam04348 1085623002233 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1085623002234 putative ligand binding site [chemical binding]; other site 1085623002235 Predicted methyltransferases [General function prediction only]; Region: COG0313 1085623002236 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1085623002237 putative SAM binding site [chemical binding]; other site 1085623002238 putative homodimer interface [polypeptide binding]; other site 1085623002239 arginine repressor; Provisional; Region: PRK05066 1085623002240 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1085623002241 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1085623002242 malate dehydrogenase; Provisional; Region: PRK05086 1085623002243 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 1085623002244 NAD binding site [chemical binding]; other site 1085623002245 dimerization interface [polypeptide binding]; other site 1085623002246 Substrate binding site [chemical binding]; other site 1085623002247 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 1085623002248 putative metal binding site [ion binding]; other site 1085623002249 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 1085623002250 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1085623002251 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1085623002252 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1085623002253 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 1085623002254 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1085623002255 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1085623002256 MarR family; Region: MarR; pfam01047 1085623002257 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 1085623002258 homotetrameric interface [polypeptide binding]; other site 1085623002259 putative allosteric binding site; other site 1085623002260 nucleotide binding site [chemical binding]; other site 1085623002261 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1085623002262 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1085623002263 putative catalytic cysteine [active] 1085623002264 Thrombospondin C-terminal region; Region: TSP_C; pfam05735 1085623002265 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 1085623002266 active site 1085623002267 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1085623002268 HlyD family secretion protein; Region: HlyD_3; pfam13437 1085623002269 Ribosomal protein S27; Region: Ribosomal_S27e; cl00897 1085623002270 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1085623002271 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1085623002272 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1085623002273 DXD motif; other site 1085623002274 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 1085623002275 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1085623002276 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1085623002277 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1085623002278 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1085623002279 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 1085623002280 DctM-like transporters; Region: DctM; pfam06808 1085623002281 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1085623002282 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1085623002283 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 1085623002284 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 1085623002285 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 1085623002286 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 1085623002287 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 1085623002288 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 1085623002289 E3 interaction surface; other site 1085623002290 lipoyl attachment site [posttranslational modification]; other site 1085623002291 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 1085623002292 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 1085623002293 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 1085623002294 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 1085623002295 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 1085623002296 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 1085623002297 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 1085623002298 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 1085623002299 FAD binding pocket [chemical binding]; other site 1085623002300 FAD binding motif [chemical binding]; other site 1085623002301 phosphate binding motif [ion binding]; other site 1085623002302 beta-alpha-beta structure motif; other site 1085623002303 NAD binding pocket [chemical binding]; other site 1085623002304 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1085623002305 ApbE family; Region: ApbE; pfam02424 1085623002306 Protein of unknown function (DUF539); Region: DUF539; cl01129 1085623002307 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1085623002308 active site 1085623002309 DNA polymerase IV; Validated; Region: PRK02406 1085623002310 DNA binding site [nucleotide binding] 1085623002311 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 1085623002312 interface (dimer of trimers) [polypeptide binding]; other site 1085623002313 Substrate-binding/catalytic site; other site 1085623002314 Zn-binding sites [ion binding]; other site 1085623002315 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 1085623002316 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1085623002317 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1085623002318 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1085623002319 Coenzyme A binding pocket [chemical binding]; other site 1085623002320 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1085623002321 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1085623002322 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1085623002323 active site 1085623002324 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1085623002325 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 1085623002326 tetramer interface [polypeptide binding]; other site 1085623002327 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1085623002328 catalytic residue [active] 1085623002329 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 1085623002330 pentamer interface [polypeptide binding]; other site 1085623002331 dodecaamer interface [polypeptide binding]; other site 1085623002332 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 1085623002333 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1085623002334 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1085623002335 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1085623002336 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1085623002337 NAD binding site [chemical binding]; other site 1085623002338 active site 1085623002339 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 1085623002340 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1085623002341 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1085623002342 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1085623002343 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1085623002344 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1085623002345 metal binding site [ion binding]; metal-binding site 1085623002346 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1085623002347 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1085623002348 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1085623002349 Protein of unknown function, DUF393; Region: DUF393; pfam04134 1085623002350 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1085623002351 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1085623002352 NAD(P) binding site [chemical binding]; other site 1085623002353 active site 1085623002354 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1085623002355 Na2 binding site [ion binding]; other site 1085623002356 putative substrate binding site 1 [chemical binding]; other site 1085623002357 Na binding site 1 [ion binding]; other site 1085623002358 putative substrate binding site 2 [chemical binding]; other site 1085623002359 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_3; cd08653 1085623002360 putative active site [active] 1085623002361 putative cosubstrate binding site; other site 1085623002362 putative substrate binding site [chemical binding]; other site 1085623002363 catalytic site [active] 1085623002364 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1085623002365 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1085623002366 putative NAD(P) binding site [chemical binding]; other site 1085623002367 hypothetical protein; Provisional; Region: PRK10626 1085623002368 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 1085623002369 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1085623002370 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1085623002371 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1085623002372 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1085623002373 putative acyl-acceptor binding pocket; other site 1085623002374 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1085623002375 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1085623002376 putative acyl-acceptor binding pocket; other site 1085623002377 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623002378 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623002379 metal binding site [ion binding]; metal-binding site 1085623002380 active site 1085623002381 I-site; other site 1085623002382 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623002383 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623002384 metal binding site [ion binding]; metal-binding site 1085623002385 active site 1085623002386 I-site; other site 1085623002387 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1085623002388 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1085623002389 substrate binding site [chemical binding]; other site 1085623002390 catalytic Zn binding site [ion binding]; other site 1085623002391 NAD binding site [chemical binding]; other site 1085623002392 structural Zn binding site [ion binding]; other site 1085623002393 dimer interface [polypeptide binding]; other site 1085623002394 S-formylglutathione hydrolase; Region: PLN02442 1085623002395 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1085623002396 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 1085623002397 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 1085623002398 FMN binding site [chemical binding]; other site 1085623002399 active site 1085623002400 catalytic residues [active] 1085623002401 substrate binding site [chemical binding]; other site 1085623002402 PspC domain; Region: PspC; pfam04024 1085623002403 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 1085623002404 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 1085623002405 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 1085623002406 Flavodoxin; Region: Flavodoxin_1; pfam00258 1085623002407 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 1085623002408 FAD binding pocket [chemical binding]; other site 1085623002409 FAD binding motif [chemical binding]; other site 1085623002410 catalytic residues [active] 1085623002411 NAD binding pocket [chemical binding]; other site 1085623002412 phosphate binding motif [ion binding]; other site 1085623002413 beta-alpha-beta structure motif; other site 1085623002414 sulfite reductase subunit beta; Provisional; Region: PRK13504 1085623002415 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1085623002416 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1085623002417 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1085623002418 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 1085623002419 Active Sites [active] 1085623002420 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 1085623002421 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623002422 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623002423 metal binding site [ion binding]; metal-binding site 1085623002424 active site 1085623002425 I-site; other site 1085623002426 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 1085623002427 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 1085623002428 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1085623002429 Di-iron ligands [ion binding]; other site 1085623002430 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1085623002431 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1085623002432 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1085623002433 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 1085623002434 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 1085623002435 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 1085623002436 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1085623002437 catalytic residue [active] 1085623002438 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 1085623002439 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1085623002440 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1085623002441 Protein of unknown function (DUF432); Region: DUF432; cl01027 1085623002442 Domain of unknown function DUF21; Region: DUF21; pfam01595 1085623002443 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1085623002444 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 1085623002445 RDD family; Region: RDD; pfam06271 1085623002446 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 1085623002447 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1085623002448 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1085623002449 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1085623002450 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1085623002451 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 1085623002452 interface (dimer of trimers) [polypeptide binding]; other site 1085623002453 Substrate-binding/catalytic site; other site 1085623002454 Zn-binding sites [ion binding]; other site 1085623002455 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 1085623002456 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1085623002457 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1085623002458 HIGH motif; other site 1085623002459 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1085623002460 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1085623002461 active site 1085623002462 KMSKS motif; other site 1085623002463 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1085623002464 tRNA binding surface [nucleotide binding]; other site 1085623002465 anticodon binding site; other site 1085623002466 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1085623002467 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1085623002468 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1085623002469 Predicted ATPase [General function prediction only]; Region: COG1485 1085623002470 Predicted membrane protein [Function unknown]; Region: COG2311 1085623002471 Protein of unknown function (DUF418); Region: DUF418; pfam04235 1085623002472 GlyGly-CTERM domain; Region: GlyGly_CTERM; TIGR03501 1085623002473 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1085623002474 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1085623002475 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cl00425 1085623002476 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1085623002477 HlyD family secretion protein; Region: HlyD_3; pfam13437 1085623002478 hypothetical protein; Provisional; Region: PRK06489 1085623002479 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1085623002480 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; cd00317 1085623002481 active site 1085623002482 Domain of unknown function (DUF368); Region: DUF368; pfam04018 1085623002483 RNase E inhibitor protein; Provisional; Region: PRK11191 1085623002484 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 1085623002485 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1085623002486 putative acyl-acceptor binding pocket; other site 1085623002487 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 1085623002488 putative binding surface; other site 1085623002489 active site 1085623002490 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1085623002491 Zn2+ binding site [ion binding]; other site 1085623002492 Mg2+ binding site [ion binding]; other site 1085623002493 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 1085623002494 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1085623002495 NAD binding site [chemical binding]; other site 1085623002496 ligand binding site [chemical binding]; other site 1085623002497 catalytic site [active] 1085623002498 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 1085623002499 putative hydrophobic ligand binding site [chemical binding]; other site 1085623002500 putative peptidase; Provisional; Region: PRK11649 1085623002501 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 1085623002502 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1085623002503 Peptidase family M23; Region: Peptidase_M23; pfam01551 1085623002504 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1085623002505 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1085623002506 active site 1085623002507 HIGH motif; other site 1085623002508 dimer interface [polypeptide binding]; other site 1085623002509 KMSKS motif; other site 1085623002510 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 1085623002511 RNA binding surface [nucleotide binding]; other site 1085623002512 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 1085623002513 active site residue [active] 1085623002514 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 1085623002515 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 1085623002516 intersubunit interface [polypeptide binding]; other site 1085623002517 CobD/Cbib protein; Region: CobD_Cbib; cl00561 1085623002518 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1085623002519 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1085623002520 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 1085623002521 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 1085623002522 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1085623002523 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1085623002524 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 1085623002525 active site 1085623002526 dimer interface [polypeptide binding]; other site 1085623002527 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1085623002528 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 1085623002529 active site 1085623002530 FMN binding site [chemical binding]; other site 1085623002531 substrate binding site [chemical binding]; other site 1085623002532 3Fe-4S cluster binding site [ion binding]; other site 1085623002533 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 1085623002534 domain interface; other site 1085623002535 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 1085623002536 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 1085623002537 putative active site [active] 1085623002538 heme pocket [chemical binding]; other site 1085623002539 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 1085623002540 dimer interface [polypeptide binding]; other site 1085623002541 phosphorylation site [posttranslational modification] 1085623002542 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 1085623002543 ATP binding site [chemical binding]; other site 1085623002544 Mg2+ binding site [ion binding]; other site 1085623002545 G-X-G motif; other site 1085623002546 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623002547 active site 1085623002548 phosphorylation site [posttranslational modification] 1085623002549 intermolecular recognition site; other site 1085623002550 dimerization interface [polypeptide binding]; other site 1085623002551 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 1085623002552 putative binding surface; other site 1085623002553 active site 1085623002554 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1085623002555 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1085623002556 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1085623002557 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1085623002558 MgtE intracellular N domain; Region: MgtE_N; smart00924 1085623002559 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 1085623002560 Divalent cation transporter; Region: MgtE; pfam01769 1085623002561 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 1085623002562 dimerization domain swap beta strand [polypeptide binding]; other site 1085623002563 regulatory protein interface [polypeptide binding]; other site 1085623002564 active site 1085623002565 regulatory phosphorylation site [posttranslational modification]; other site 1085623002566 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1085623002567 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 1085623002568 active site 1085623002569 phosphorylation site [posttranslational modification] 1085623002570 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 1085623002571 30S subunit binding site; other site 1085623002572 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1085623002573 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1085623002574 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1085623002575 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1085623002576 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1085623002577 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1085623002578 Walker A/P-loop; other site 1085623002579 ATP binding site [chemical binding]; other site 1085623002580 Q-loop/lid; other site 1085623002581 ABC transporter signature motif; other site 1085623002582 Walker B; other site 1085623002583 D-loop; other site 1085623002584 H-loop/switch region; other site 1085623002585 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1085623002586 OstA-like protein; Region: OstA; cl00844 1085623002587 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 1085623002588 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1085623002589 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1085623002590 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1085623002591 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 1085623002592 putative active site [active] 1085623002593 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 1085623002594 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 1085623002595 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1085623002596 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1085623002597 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 1085623002598 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1085623002599 Walker A/P-loop; other site 1085623002600 ATP binding site [chemical binding]; other site 1085623002601 Q-loop/lid; other site 1085623002602 ABC transporter signature motif; other site 1085623002603 Walker B; other site 1085623002604 D-loop; other site 1085623002605 H-loop/switch region; other site 1085623002606 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1085623002607 Permease; Region: Permease; cl00510 1085623002608 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1085623002609 mce related protein; Region: MCE; pfam02470 1085623002610 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 1085623002611 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 1085623002612 anti sigma factor interaction site; other site 1085623002613 regulatory phosphorylation site [posttranslational modification]; other site 1085623002614 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1085623002615 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1085623002616 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 1085623002617 hinge; other site 1085623002618 active site 1085623002619 serine endoprotease; Provisional; Region: PRK10898 1085623002620 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1085623002621 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 1085623002622 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1085623002623 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1085623002624 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 1085623002625 protein binding site [polypeptide binding]; other site 1085623002626 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 1085623002627 Predicted ATPase [General function prediction only]; Region: COG1485 1085623002628 hypothetical protein; Provisional; Region: PRK12378 1085623002629 CHASE domain; Region: CHASE; pfam03924 1085623002630 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1085623002631 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 1085623002632 putative active site [active] 1085623002633 heme pocket [chemical binding]; other site 1085623002634 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 1085623002635 dimer interface [polypeptide binding]; other site 1085623002636 phosphorylation site [posttranslational modification] 1085623002637 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 1085623002638 ATP binding site [chemical binding]; other site 1085623002639 Mg2+ binding site [ion binding]; other site 1085623002640 G-X-G motif; other site 1085623002641 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1085623002642 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623002643 active site 1085623002644 phosphorylation site [posttranslational modification] 1085623002645 intermolecular recognition site; other site 1085623002646 dimerization interface [polypeptide binding]; other site 1085623002647 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 1085623002648 SEC-C motif; Region: SEC-C; pfam02810 1085623002649 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1085623002650 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 1085623002651 S-adenosylmethionine binding site [chemical binding]; other site 1085623002652 PRMT5 arginine-N-methyltransferase; Region: PRMT5; cl17640 1085623002653 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 1085623002654 active site 1085623002655 Tellurite resistance protein TerB; Region: TerB; cl17311 1085623002656 WYL domain; Region: WYL; pfam13280 1085623002657 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1085623002658 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 1085623002659 oligomer interface [polypeptide binding]; other site 1085623002660 metal binding site [ion binding]; metal-binding site 1085623002661 metal binding site [ion binding]; metal-binding site 1085623002662 Cl binding site [ion binding]; other site 1085623002663 aspartate ring; other site 1085623002664 basic sphincter; other site 1085623002665 putative hydrophobic gate; other site 1085623002666 periplasmic entrance; other site 1085623002667 putative metal dependent hydrolase; Provisional; Region: PRK11598 1085623002668 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1085623002669 Sulfatase; Region: Sulfatase; pfam00884 1085623002670 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1085623002671 Surface antigen; Region: Bac_surface_Ag; pfam01103 1085623002672 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1085623002673 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 1085623002674 putative active site [active] 1085623002675 Zn binding site [ion binding]; other site 1085623002676 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 1085623002677 apolar tunnel; other site 1085623002678 heme binding site [chemical binding]; other site 1085623002679 dimerization interface [polypeptide binding]; other site 1085623002680 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 1085623002681 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 1085623002682 dimerization interface [polypeptide binding]; other site 1085623002683 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623002684 metal binding site [ion binding]; metal-binding site 1085623002685 active site 1085623002686 I-site; other site 1085623002687 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 1085623002688 HAMP domain; Region: HAMP; pfam00672 1085623002689 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623002690 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623002691 metal binding site [ion binding]; metal-binding site 1085623002692 active site 1085623002693 I-site; other site 1085623002694 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 1085623002695 Bacterial PH domain; Region: DUF304; cl01348 1085623002696 Predicted membrane protein [Function unknown]; Region: COG3428 1085623002697 Bacterial PH domain; Region: DUF304; pfam03703 1085623002698 Bacterial PH domain; Region: DUF304; cl01348 1085623002699 Bacterial PH domain; Region: DUF304; pfam03703 1085623002700 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623002701 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623002702 metal binding site [ion binding]; metal-binding site 1085623002703 active site 1085623002704 I-site; other site 1085623002705 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1085623002706 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 1085623002707 PAS domain; Region: PAS_9; pfam13426 1085623002708 putative active site [active] 1085623002709 heme pocket [chemical binding]; other site 1085623002710 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623002711 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623002712 metal binding site [ion binding]; metal-binding site 1085623002713 active site 1085623002714 I-site; other site 1085623002715 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 1085623002716 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 1085623002717 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 1085623002718 putative active site pocket [active] 1085623002719 dimerization interface [polypeptide binding]; other site 1085623002720 putative catalytic residue [active] 1085623002721 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 1085623002722 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1085623002723 interface (dimer of trimers) [polypeptide binding]; other site 1085623002724 Substrate-binding/catalytic site; other site 1085623002725 Zn-binding sites [ion binding]; other site 1085623002726 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 1085623002727 active site 1085623002728 PA14 domain; Region: PA14; cl08459 1085623002729 PEP-CTERM motif; Region: VPEP; pfam07589 1085623002730 Protein of unknown function, DUF547; Region: DUF547; pfam04784 1085623002731 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1085623002732 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1085623002733 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623002734 active site 1085623002735 phosphorylation site [posttranslational modification] 1085623002736 intermolecular recognition site; other site 1085623002737 dimerization interface [polypeptide binding]; other site 1085623002738 glutaminyl-tRNA synthetase; Provisional; Region: PTZ00437 1085623002739 choice-of-anchor C domain; Region: choice_anch_C; TIGR04362 1085623002740 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1085623002741 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1085623002742 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 1085623002743 dimer interface [polypeptide binding]; other site 1085623002744 phosphorylation site [posttranslational modification] 1085623002745 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 1085623002746 ATP binding site [chemical binding]; other site 1085623002747 Mg2+ binding site [ion binding]; other site 1085623002748 G-X-G motif; other site 1085623002749 Response regulator receiver domain; Region: Response_reg; pfam00072 1085623002750 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623002751 active site 1085623002752 phosphorylation site [posttranslational modification] 1085623002753 intermolecular recognition site; other site 1085623002754 dimerization interface [polypeptide binding]; other site 1085623002755 Helix-turn-helix domain; Region: HTH_18; pfam12833 1085623002756 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1085623002757 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 1085623002758 active site 1085623002759 DNA binding site [nucleotide binding] 1085623002760 Int/Topo IB signature motif; other site 1085623002761 EamA-like transporter family; Region: EamA; pfam00892 1085623002762 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1085623002763 EamA-like transporter family; Region: EamA; pfam00892 1085623002764 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1085623002765 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1085623002766 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1085623002767 CAAX protease self-immunity; Region: Abi; pfam02517 1085623002768 LytTr DNA-binding domain; Region: LytTR; smart00850 1085623002769 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1085623002770 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 1085623002771 metal binding site [ion binding]; metal-binding site 1085623002772 dimer interface [polypeptide binding]; other site 1085623002773 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 1085623002774 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 1085623002775 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1085623002776 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1085623002777 active site 1085623002778 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 1085623002779 active site 1085623002780 DNA binding site [nucleotide binding] 1085623002781 Int/Topo IB signature motif; other site 1085623002782 MAPEG family; Region: MAPEG; pfam01124 1085623002783 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 1085623002784 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 1085623002785 active site 1085623002786 DNA binding site [nucleotide binding] 1085623002787 Int/Topo IB signature motif; other site 1085623002788 Helix-turn-helix domain; Region: HTH_17; pfam12728 1085623002789 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 1085623002790 LrgA family; Region: LrgA; cl00608 1085623002791 LrgB-like family; Region: LrgB; pfam04172 1085623002792 Response regulator receiver domain; Region: Response_reg; pfam00072 1085623002793 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623002794 active site 1085623002795 phosphorylation site [posttranslational modification] 1085623002796 intermolecular recognition site; other site 1085623002797 dimerization interface [polypeptide binding]; other site 1085623002798 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 1085623002799 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 1085623002800 PAS fold; Region: PAS_4; pfam08448 1085623002801 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 1085623002802 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 1085623002803 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1085623002804 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 1085623002805 dimer interface [polypeptide binding]; other site 1085623002806 phosphorylation site [posttranslational modification] 1085623002807 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 1085623002808 ATP binding site [chemical binding]; other site 1085623002809 Mg2+ binding site [ion binding]; other site 1085623002810 G-X-G motif; other site 1085623002811 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623002812 active site 1085623002813 phosphorylation site [posttranslational modification] 1085623002814 intermolecular recognition site; other site 1085623002815 dimerization interface [polypeptide binding]; other site 1085623002816 Response regulator receiver domain; Region: Response_reg; pfam00072 1085623002817 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623002818 active site 1085623002819 phosphorylation site [posttranslational modification] 1085623002820 intermolecular recognition site; other site 1085623002821 dimerization interface [polypeptide binding]; other site 1085623002822 HemN family oxidoreductase; Provisional; Region: PRK05660 1085623002823 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 1085623002824 FeS/SAM binding site; other site 1085623002825 HemN C-terminal domain; Region: HemN_C; pfam06969 1085623002826 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 1085623002827 active site 1085623002828 dimerization interface [polypeptide binding]; other site 1085623002829 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 1085623002830 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1085623002831 ATP binding site [chemical binding]; other site 1085623002832 Mg++ binding site [ion binding]; other site 1085623002833 motif III; other site 1085623002834 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 1085623002835 nucleotide binding region [chemical binding]; other site 1085623002836 ATP-binding site [chemical binding]; other site 1085623002837 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 1085623002838 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 1085623002839 Walker A motif; other site 1085623002840 ATP binding site [chemical binding]; other site 1085623002841 Walker B motif; other site 1085623002842 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1085623002843 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 1085623002844 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1085623002845 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1085623002846 Zn2+ binding site [ion binding]; other site 1085623002847 Mg2+ binding site [ion binding]; other site 1085623002848 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1085623002849 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 1085623002850 substrate binding site [chemical binding]; other site 1085623002851 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1085623002852 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1085623002853 substrate binding site [chemical binding]; other site 1085623002854 ligand binding site [chemical binding]; other site 1085623002855 tartrate dehydrogenase; Region: TTC; TIGR02089 1085623002856 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1085623002857 2-isopropylmalate synthase; Validated; Region: PRK00915 1085623002858 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1085623002859 active site 1085623002860 catalytic residues [active] 1085623002861 metal binding site [ion binding]; metal-binding site 1085623002862 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1085623002863 malate synthase G; Provisional; Region: PRK02999 1085623002864 active site 1085623002865 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1085623002866 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1085623002867 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 1085623002868 substrate binding pocket [chemical binding]; other site 1085623002869 dimerization interface [polypeptide binding]; other site 1085623002870 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 1085623002871 tetramer interface [polypeptide binding]; other site 1085623002872 active site 1085623002873 Mg2+/Mn2+ binding site [ion binding]; other site 1085623002874 isocitrate lyase; Region: PLN02892 1085623002875 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 1085623002876 dimer interface [polypeptide binding]; other site 1085623002877 Alkaline phosphatase homologues; Region: alkPPc; smart00098 1085623002878 active site 1085623002879 heat shock protein HtpX; Provisional; Region: PRK05457 1085623002880 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 1085623002881 FtsX-like permease family; Region: FtsX; pfam02687 1085623002882 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1085623002883 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1085623002884 Walker A/P-loop; other site 1085623002885 ATP binding site [chemical binding]; other site 1085623002886 Q-loop/lid; other site 1085623002887 ABC transporter signature motif; other site 1085623002888 Walker B; other site 1085623002889 D-loop; other site 1085623002890 H-loop/switch region; other site 1085623002891 Rhomboid family; Region: Rhomboid; pfam01694 1085623002892 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 1085623002893 Protein of unknown function (DUF1190); Region: DUF1190; cl10031 1085623002894 Predicted membrane protein [Function unknown]; Region: COG3766 1085623002895 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 1085623002896 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 1085623002897 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 1085623002898 Ion channel; Region: Ion_trans_2; pfam07885 1085623002899 TrkA-N domain; Region: TrkA_N; pfam02254 1085623002900 PspA/IM30 family; Region: PspA_IM30; pfam04012 1085623002901 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 1085623002902 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1085623002903 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1085623002904 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1085623002905 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1085623002906 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1085623002907 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1085623002908 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1085623002909 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1085623002910 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1085623002911 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1085623002912 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1085623002913 Protein export membrane protein; Region: SecD_SecF; pfam02355 1085623002914 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1085623002915 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 1085623002916 active site 1085623002917 dimerization interface [polypeptide binding]; other site 1085623002918 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1085623002919 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1085623002920 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1085623002921 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 1085623002922 dimer interface [polypeptide binding]; other site 1085623002923 phosphorylation site [posttranslational modification] 1085623002924 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 1085623002925 ATP binding site [chemical binding]; other site 1085623002926 Mg2+ binding site [ion binding]; other site 1085623002927 G-X-G motif; other site 1085623002928 Response regulator receiver domain; Region: Response_reg; pfam00072 1085623002929 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623002930 active site 1085623002931 phosphorylation site [posttranslational modification] 1085623002932 intermolecular recognition site; other site 1085623002933 dimerization interface [polypeptide binding]; other site 1085623002934 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 1085623002935 putative binding surface; other site 1085623002936 active site 1085623002937 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 1085623002938 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1085623002939 serine O-acetyltransferase; Region: cysE; TIGR01172 1085623002940 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 1085623002941 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 1085623002942 trimer interface [polypeptide binding]; other site 1085623002943 active site 1085623002944 substrate binding site [chemical binding]; other site 1085623002945 CoA binding site [chemical binding]; other site 1085623002946 Transcriptional regulator; Region: Rrf2; cl17282 1085623002947 Rrf2 family protein; Region: rrf2_super; TIGR00738 1085623002948 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 1085623002949 cysteine desulfurase; Provisional; Region: PRK14012 1085623002950 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1085623002951 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1085623002952 catalytic residue [active] 1085623002953 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 1085623002954 active site 1085623002955 multimer interface [polypeptide binding]; other site 1085623002956 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1085623002957 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 1085623002958 FeS/SAM binding site; other site 1085623002959 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1085623002960 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 1085623002961 TPR motif; other site 1085623002962 binding surface 1085623002963 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 1085623002964 binding surface 1085623002965 TPR motif; other site 1085623002966 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1085623002967 cytoskeletal protein RodZ; Provisional; Region: PRK10856 1085623002968 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 1085623002969 non-specific DNA binding site [nucleotide binding]; other site 1085623002970 salt bridge; other site 1085623002971 sequence-specific DNA binding site [nucleotide binding]; other site 1085623002972 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1085623002973 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1085623002974 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1085623002975 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1085623002976 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1085623002977 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 1085623002978 dimer interface [polypeptide binding]; other site 1085623002979 motif 1; other site 1085623002980 active site 1085623002981 motif 2; other site 1085623002982 motif 3; other site 1085623002983 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 1085623002984 anticodon binding site; other site 1085623002985 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1085623002986 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 1085623002987 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1085623002988 Trp docking motif [polypeptide binding]; other site 1085623002989 active site 1085623002990 GTP-binding protein Der; Reviewed; Region: PRK00093 1085623002991 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1085623002992 G1 box; other site 1085623002993 GTP/Mg2+ binding site [chemical binding]; other site 1085623002994 Switch I region; other site 1085623002995 G2 box; other site 1085623002996 Switch II region; other site 1085623002997 G3 box; other site 1085623002998 G4 box; other site 1085623002999 G5 box; other site 1085623003000 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1085623003001 G1 box; other site 1085623003002 GTP/Mg2+ binding site [chemical binding]; other site 1085623003003 Switch I region; other site 1085623003004 G2 box; other site 1085623003005 G3 box; other site 1085623003006 Switch II region; other site 1085623003007 G4 box; other site 1085623003008 G5 box; other site 1085623003009 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 1085623003010 GIY-YIG motif/motif A; other site 1085623003011 putative active site [active] 1085623003012 putative metal binding site [ion binding]; other site 1085623003013 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 1085623003014 Peptidase family M2 Angiotensin converting enzyme (ACE); Region: M2_ACE; cd06461 1085623003015 active site 1085623003016 Zn binding site [ion binding]; other site 1085623003017 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 1085623003018 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1085623003019 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 1085623003020 generic binding surface II; other site 1085623003021 generic binding surface I; other site 1085623003022 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1085623003023 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 1085623003024 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 1085623003025 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 1085623003026 active site 1085623003027 GMP synthase; Reviewed; Region: guaA; PRK00074 1085623003028 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1085623003029 AMP/PPi binding site [chemical binding]; other site 1085623003030 candidate oxyanion hole; other site 1085623003031 catalytic triad [active] 1085623003032 potential glutamine specificity residues [chemical binding]; other site 1085623003033 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 1085623003034 ATP Binding subdomain [chemical binding]; other site 1085623003035 Ligand Binding sites [chemical binding]; other site 1085623003036 Dimerization subdomain; other site 1085623003037 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1085623003038 Phospholipase A1; Region: PLA1; pfam02253 1085623003039 dimerization interface [polypeptide binding]; other site 1085623003040 substrate binding site [chemical binding]; other site 1085623003041 active site 1085623003042 calcium binding site [ion binding]; other site 1085623003043 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1085623003044 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1085623003045 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 1085623003046 dimer interface [polypeptide binding]; other site 1085623003047 motif 1; other site 1085623003048 active site 1085623003049 motif 2; other site 1085623003050 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 1085623003051 putative deacylase active site [active] 1085623003052 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 1085623003053 active site 1085623003054 motif 3; other site 1085623003055 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 1085623003056 anticodon binding site; other site 1085623003057 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1085623003058 homodimer interaction site [polypeptide binding]; other site 1085623003059 cofactor binding site; other site 1085623003060 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 1085623003061 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 1085623003062 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1085623003063 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1085623003064 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1085623003065 homodimer interface [polypeptide binding]; other site 1085623003066 NADP binding site [chemical binding]; other site 1085623003067 substrate binding site [chemical binding]; other site 1085623003068 trigger factor; Provisional; Region: tig; PRK01490 1085623003069 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1085623003070 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1085623003071 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1085623003072 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1085623003073 oligomer interface [polypeptide binding]; other site 1085623003074 active site residues [active] 1085623003075 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1085623003076 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1085623003077 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 1085623003078 Walker A motif; other site 1085623003079 ATP binding site [chemical binding]; other site 1085623003080 Walker B motif; other site 1085623003081 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1085623003082 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1085623003083 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1085623003084 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 1085623003085 Walker A motif; other site 1085623003086 ATP binding site [chemical binding]; other site 1085623003087 Walker B motif; other site 1085623003088 arginine finger; other site 1085623003089 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1085623003090 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 1085623003091 IHF dimer interface [polypeptide binding]; other site 1085623003092 IHF - DNA interface [nucleotide binding]; other site 1085623003093 periplasmic folding chaperone; Provisional; Region: PRK10788 1085623003094 SurA N-terminal domain; Region: SurA_N_3; cl07813 1085623003095 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1085623003096 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1085623003097 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1085623003098 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1085623003099 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1085623003100 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1085623003101 active site 1085623003102 Riboflavin kinase; Region: Flavokinase; smart00904 1085623003103 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1085623003104 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1085623003105 active site 1085623003106 HIGH motif; other site 1085623003107 nucleotide binding site [chemical binding]; other site 1085623003108 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1085623003109 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1085623003110 active site 1085623003111 KMSKS motif; other site 1085623003112 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1085623003113 tRNA binding surface [nucleotide binding]; other site 1085623003114 anticodon binding site; other site 1085623003115 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1085623003116 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1085623003117 lipoprotein signal peptidase; Provisional; Region: PRK14787 1085623003118 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1085623003119 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1085623003120 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1085623003121 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1085623003122 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1085623003123 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 1085623003124 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1085623003125 PilX N-terminal; Region: PilX_N; pfam14341 1085623003126 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1085623003127 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 1085623003128 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1085623003129 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 1085623003130 active site 1085623003131 metal binding site [ion binding]; metal-binding site 1085623003132 Type II transport protein GspH; Region: GspH; pfam12019 1085623003133 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1085623003134 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 1085623003135 homodimer interface [polypeptide binding]; other site 1085623003136 NAD binding pocket [chemical binding]; other site 1085623003137 ATP binding pocket [chemical binding]; other site 1085623003138 Mg binding site [ion binding]; other site 1085623003139 active-site loop [active] 1085623003140 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1085623003141 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1085623003142 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1085623003143 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1085623003144 putative global regulator; Reviewed; Region: PRK09559 1085623003145 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1085623003146 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1085623003147 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 1085623003148 active site 2 [active] 1085623003149 active site 1 [active] 1085623003150 L-aspartate oxidase; Provisional; Region: PRK09077 1085623003151 L-aspartate oxidase; Provisional; Region: PRK06175 1085623003152 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1085623003153 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 1085623003154 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1085623003155 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 1085623003156 DNA binding residues [nucleotide binding] 1085623003157 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 1085623003158 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1085623003159 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1085623003160 MucB/RseB family; Region: MucB_RseB; pfam03888 1085623003161 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 1085623003162 GTP-binding protein LepA; Provisional; Region: PRK05433 1085623003163 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1085623003164 G1 box; other site 1085623003165 putative GEF interaction site [polypeptide binding]; other site 1085623003166 GTP/Mg2+ binding site [chemical binding]; other site 1085623003167 Switch I region; other site 1085623003168 G2 box; other site 1085623003169 G3 box; other site 1085623003170 Switch II region; other site 1085623003171 G4 box; other site 1085623003172 G5 box; other site 1085623003173 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 1085623003174 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 1085623003175 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1085623003176 signal peptidase I; Provisional; Region: PRK10861 1085623003177 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 1085623003178 Catalytic site [active] 1085623003179 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 1085623003180 ribonuclease III; Reviewed; Region: rnc; PRK00102 1085623003181 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 1085623003182 dimerization interface [polypeptide binding]; other site 1085623003183 active site 1085623003184 metal binding site [ion binding]; metal-binding site 1085623003185 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 1085623003186 dsRNA binding site [nucleotide binding]; other site 1085623003187 GTPase Era; Reviewed; Region: era; PRK00089 1085623003188 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1085623003189 G1 box; other site 1085623003190 GTP/Mg2+ binding site [chemical binding]; other site 1085623003191 Switch I region; other site 1085623003192 G2 box; other site 1085623003193 Switch II region; other site 1085623003194 G3 box; other site 1085623003195 G4 box; other site 1085623003196 G5 box; other site 1085623003197 KH domain; Region: KH_2; pfam07650 1085623003198 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 1085623003199 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1085623003200 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1085623003201 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1085623003202 active site 1085623003203 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 1085623003204 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1085623003205 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1085623003206 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 1085623003207 motif II; other site 1085623003208 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 1085623003209 CreA protein; Region: CreA; pfam05981 1085623003210 PAS domain S-box; Region: sensory_box; TIGR00229 1085623003211 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 1085623003212 putative active site [active] 1085623003213 heme pocket [chemical binding]; other site 1085623003214 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 1085623003215 PAS fold; Region: PAS_3; pfam08447 1085623003216 putative active site [active] 1085623003217 heme pocket [chemical binding]; other site 1085623003218 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623003219 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623003220 metal binding site [ion binding]; metal-binding site 1085623003221 active site 1085623003222 I-site; other site 1085623003223 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 1085623003224 Domain of unknown function (DUF1864); Region: DUF1864; pfam08933 1085623003225 PilZ domain; Region: PilZ; pfam07238 1085623003226 PilZ domain; Region: PilZ; pfam07238 1085623003227 DNA repair protein RadA; Provisional; Region: PRK11823 1085623003228 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 1085623003229 Walker A motif/ATP binding site; other site 1085623003230 ATP binding site [chemical binding]; other site 1085623003231 Walker B motif; other site 1085623003232 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1085623003233 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1085623003234 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 1085623003235 nucleophilic elbow; other site 1085623003236 catalytic triad; other site 1085623003237 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1085623003238 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1085623003239 Walker A/P-loop; other site 1085623003240 ATP binding site [chemical binding]; other site 1085623003241 Q-loop/lid; other site 1085623003242 ABC transporter signature motif; other site 1085623003243 Walker B; other site 1085623003244 D-loop; other site 1085623003245 H-loop/switch region; other site 1085623003246 ABC transporter; Region: ABC_tran_2; pfam12848 1085623003247 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1085623003248 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1085623003249 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1085623003250 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 1085623003251 trimer interface [polypeptide binding]; other site 1085623003252 active site 1085623003253 UDP-GlcNAc binding site [chemical binding]; other site 1085623003254 lipid binding site [chemical binding]; lipid-binding site 1085623003255 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1085623003256 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 1085623003257 dimer interface [polypeptide binding]; other site 1085623003258 active site 1085623003259 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1085623003260 folate binding site [chemical binding]; other site 1085623003261 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1085623003262 ATP cone domain; Region: ATP-cone; pfam03477 1085623003263 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1085623003264 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 1085623003265 catalytic motif [active] 1085623003266 Zn binding site [ion binding]; other site 1085623003267 RibD C-terminal domain; Region: RibD_C; cl17279 1085623003268 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1085623003269 Lumazine binding domain; Region: Lum_binding; pfam00677 1085623003270 Lumazine binding domain; Region: Lum_binding; pfam00677 1085623003271 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1085623003272 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1085623003273 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1085623003274 dimerization interface [polypeptide binding]; other site 1085623003275 active site 1085623003276 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 1085623003277 homopentamer interface [polypeptide binding]; other site 1085623003278 active site 1085623003279 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 1085623003280 putative RNA binding site [nucleotide binding]; other site 1085623003281 thiamine monophosphate kinase; Provisional; Region: PRK05731 1085623003282 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 1085623003283 ATP binding site [chemical binding]; other site 1085623003284 dimerization interface [polypeptide binding]; other site 1085623003285 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1085623003286 tetramer interfaces [polypeptide binding]; other site 1085623003287 binuclear metal-binding site [ion binding]; other site 1085623003288 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1085623003289 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 1085623003290 TPP-binding site; other site 1085623003291 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 1085623003292 PYR/PP interface [polypeptide binding]; other site 1085623003293 dimer interface [polypeptide binding]; other site 1085623003294 TPP binding site [chemical binding]; other site 1085623003295 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1085623003296 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1085623003297 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1085623003298 substrate binding pocket [chemical binding]; other site 1085623003299 chain length determination region; other site 1085623003300 substrate-Mg2+ binding site; other site 1085623003301 catalytic residues [active] 1085623003302 aspartate-rich region 1; other site 1085623003303 active site lid residues [active] 1085623003304 aspartate-rich region 2; other site 1085623003305 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1085623003306 flagellar motor protein PomA; Reviewed; Region: PRK08990 1085623003307 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1085623003308 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 1085623003309 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1085623003310 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1085623003311 ligand binding site [chemical binding]; other site 1085623003312 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1085623003313 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 1085623003314 S-adenosylmethionine binding site [chemical binding]; other site 1085623003315 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 1085623003316 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 1085623003317 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1085623003318 short chain dehydrogenase; Provisional; Region: PRK06101 1085623003319 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1085623003320 NAD(P) binding site [chemical binding]; other site 1085623003321 active site 1085623003322 SnoaL-like domain; Region: SnoaL_2; pfam12680 1085623003323 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 1085623003324 RNA polymerase sigma factor; Provisional; Region: PRK12526 1085623003325 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1085623003326 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 1085623003327 DNA binding residues [nucleotide binding] 1085623003328 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 1085623003329 Putative zinc-finger; Region: zf-HC2; pfam13490 1085623003330 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1085623003331 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1085623003332 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1085623003333 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 1085623003334 RNA binding surface [nucleotide binding]; other site 1085623003335 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1085623003336 active site 1085623003337 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1085623003338 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1085623003339 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1085623003340 Clp amino terminal domain; Region: Clp_N; pfam02861 1085623003341 Clp amino terminal domain; Region: Clp_N; pfam02861 1085623003342 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 1085623003343 Walker A motif; other site 1085623003344 ATP binding site [chemical binding]; other site 1085623003345 Walker B motif; other site 1085623003346 arginine finger; other site 1085623003347 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 1085623003348 Walker A motif; other site 1085623003349 ATP binding site [chemical binding]; other site 1085623003350 Walker B motif; other site 1085623003351 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1085623003352 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 1085623003353 binding surface 1085623003354 TPR motif; other site 1085623003355 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1085623003356 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1085623003357 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 1085623003358 EF-hand domain pair; Region: EF_hand_5; pfam13499 1085623003359 pseudo EF-hand loop; other site 1085623003360 peptide binding pocket; other site 1085623003361 Ca2+ binding site [ion binding]; other site 1085623003362 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1085623003363 dimer interface [polypeptide binding]; other site 1085623003364 putative CheW interface [polypeptide binding]; other site 1085623003365 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1085623003366 active site 1085623003367 hypothetical protein; Validated; Region: PRK00153 1085623003368 recombination protein RecR; Reviewed; Region: recR; PRK00076 1085623003369 RecR protein; Region: RecR; pfam02132 1085623003370 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 1085623003371 putative active site [active] 1085623003372 putative metal-binding site [ion binding]; other site 1085623003373 tetramer interface [polypeptide binding]; other site 1085623003374 heat shock protein 90; Provisional; Region: PRK05218 1085623003375 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 1085623003376 ATP binding site [chemical binding]; other site 1085623003377 Mg2+ binding site [ion binding]; other site 1085623003378 G-X-G motif; other site 1085623003379 adenylate kinase; Reviewed; Region: adk; PRK00279 1085623003380 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 1085623003381 AMP-binding site [chemical binding]; other site 1085623003382 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1085623003383 choline dehydrogenase; Validated; Region: PRK02106 1085623003384 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1085623003385 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1085623003386 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 1085623003387 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1085623003388 Alpha amylase catalytic domain found in archaeal and bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_AmyA; cd11313 1085623003389 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1085623003390 active site 1085623003391 catalytic site [active] 1085623003392 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 1085623003393 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1085623003394 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 1085623003395 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1085623003396 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 1085623003397 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1085623003398 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 1085623003399 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12508 1085623003400 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 1085623003401 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12504 1085623003402 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1085623003403 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; pfam03334 1085623003404 Multisubunit Na+/H+ antiporter, MnhF subunit [Inorganic ion transport and metabolism]; Region: MnhF; COG2212 1085623003405 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 1085623003406 MAPEG family; Region: MAPEG; cl09190 1085623003407 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1085623003408 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 1085623003409 putative dimer interface [polypeptide binding]; other site 1085623003410 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1085623003411 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 1085623003412 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 1085623003413 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 1085623003414 metal binding site [ion binding]; metal-binding site 1085623003415 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 1085623003416 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1085623003417 substrate binding site [chemical binding]; other site 1085623003418 glutamase interaction surface [polypeptide binding]; other site 1085623003419 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1085623003420 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 1085623003421 homodimer interface [polypeptide binding]; other site 1085623003422 substrate-cofactor binding pocket; other site 1085623003423 catalytic residue [active] 1085623003424 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 1085623003425 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 1085623003426 catalytic residues [active] 1085623003427 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 1085623003428 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1085623003429 putative active site [active] 1085623003430 oxyanion strand; other site 1085623003431 catalytic triad [active] 1085623003432 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 1085623003433 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 1085623003434 active site 1085623003435 motif I; other site 1085623003436 motif II; other site 1085623003437 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1085623003438 putative active site pocket [active] 1085623003439 4-fold oligomerization interface [polypeptide binding]; other site 1085623003440 metal binding residues [ion binding]; metal-binding site 1085623003441 3-fold/trimer interface [polypeptide binding]; other site 1085623003442 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 1085623003443 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 1085623003444 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1085623003445 homodimer interface [polypeptide binding]; other site 1085623003446 catalytic residue [active] 1085623003447 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 1085623003448 histidinol dehydrogenase; Region: hisD; TIGR00069 1085623003449 NAD binding site [chemical binding]; other site 1085623003450 dimerization interface [polypeptide binding]; other site 1085623003451 product binding site; other site 1085623003452 substrate binding site [chemical binding]; other site 1085623003453 zinc binding site [ion binding]; other site 1085623003454 catalytic residues [active] 1085623003455 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 1085623003456 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 1085623003457 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 1085623003458 Thioredoxin-like; Region: Thioredoxin_7; pfam13899 1085623003459 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1085623003460 Protein of unknown function (DUF465); Region: DUF465; cl01070 1085623003461 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1085623003462 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 1085623003463 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1085623003464 catalytic residue [active] 1085623003465 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1085623003466 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1085623003467 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 1085623003468 dimerization interface [polypeptide binding]; other site 1085623003469 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 1085623003470 dimer interface [polypeptide binding]; other site 1085623003471 phosphorylation site [posttranslational modification] 1085623003472 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 1085623003473 ATP binding site [chemical binding]; other site 1085623003474 Mg2+ binding site [ion binding]; other site 1085623003475 G-X-G motif; other site 1085623003476 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1085623003477 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623003478 active site 1085623003479 phosphorylation site [posttranslational modification] 1085623003480 intermolecular recognition site; other site 1085623003481 dimerization interface [polypeptide binding]; other site 1085623003482 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 1085623003483 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1085623003484 TrkA-C domain; Region: TrkA_C; pfam02080 1085623003485 TrkA-C domain; Region: TrkA_C; pfam02080 1085623003486 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 1085623003487 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 1085623003488 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1085623003489 CysD dimerization site [polypeptide binding]; other site 1085623003490 G1 box; other site 1085623003491 putative GEF interaction site [polypeptide binding]; other site 1085623003492 GTP/Mg2+ binding site [chemical binding]; other site 1085623003493 Switch I region; other site 1085623003494 G2 box; other site 1085623003495 G3 box; other site 1085623003496 Switch II region; other site 1085623003497 G4 box; other site 1085623003498 G5 box; other site 1085623003499 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 1085623003500 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 1085623003501 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 1085623003502 active site 1085623003503 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 1085623003504 AAA domain; Region: AAA_18; pfam13238 1085623003505 ligand-binding site [chemical binding]; other site 1085623003506 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1085623003507 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 1085623003508 Active Sites [active] 1085623003509 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 1085623003510 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 1085623003511 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1085623003512 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1085623003513 Na binding site [ion binding]; other site 1085623003514 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 1085623003515 RNA polymerase sigma factor; Provisional; Region: PRK12517 1085623003516 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1085623003517 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 1085623003518 DNA binding residues [nucleotide binding] 1085623003519 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1085623003520 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 1085623003521 Oxygen tolerance; Region: BatD; pfam13584 1085623003522 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1085623003523 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 1085623003524 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1085623003525 TPR motif; other site 1085623003526 binding surface 1085623003527 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 1085623003528 metal ion-dependent adhesion site (MIDAS); other site 1085623003529 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 1085623003530 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1085623003531 Protein of unknown function DUF58; Region: DUF58; pfam01882 1085623003532 MoxR-like ATPases [General function prediction only]; Region: COG0714 1085623003533 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 1085623003534 Walker A motif; other site 1085623003535 ATP binding site [chemical binding]; other site 1085623003536 Walker B motif; other site 1085623003537 arginine finger; other site 1085623003538 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 1085623003539 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 1085623003540 dimer interface [polypeptide binding]; other site 1085623003541 active site 1085623003542 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1085623003543 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 1085623003544 substrate binding site [chemical binding]; other site 1085623003545 oxyanion hole (OAH) forming residues; other site 1085623003546 trimer interface [polypeptide binding]; other site 1085623003547 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1085623003548 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1085623003549 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1085623003550 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1085623003551 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1085623003552 PAS fold; Region: PAS_3; pfam08447 1085623003553 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 1085623003554 PAS domain; Region: PAS_9; pfam13426 1085623003555 putative active site [active] 1085623003556 heme pocket [chemical binding]; other site 1085623003557 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623003558 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623003559 metal binding site [ion binding]; metal-binding site 1085623003560 active site 1085623003561 I-site; other site 1085623003562 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 1085623003563 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 1085623003564 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1085623003565 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1085623003566 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1085623003567 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 1085623003568 catalytic core [active] 1085623003569 Domain of unknown function DUF21; Region: DUF21; pfam01595 1085623003570 hypothetical protein; Provisional; Region: PRK11573 1085623003571 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 1085623003572 Transporter associated domain; Region: CorC_HlyC; smart01091 1085623003573 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1085623003574 signal recognition particle protein; Provisional; Region: PRK10867 1085623003575 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1085623003576 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 1085623003577 P loop; other site 1085623003578 GTP binding site [chemical binding]; other site 1085623003579 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1085623003580 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1085623003581 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1085623003582 RimM N-terminal domain; Region: RimM; pfam01782 1085623003583 PRC-barrel domain; Region: PRC; pfam05239 1085623003584 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1085623003585 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1085623003586 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1085623003587 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1085623003588 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 1085623003589 putative active site [active] 1085623003590 heme pocket [chemical binding]; other site 1085623003591 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623003592 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623003593 metal binding site [ion binding]; metal-binding site 1085623003594 active site 1085623003595 I-site; other site 1085623003596 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 1085623003597 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 1085623003598 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 1085623003599 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1085623003600 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1085623003601 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 1085623003602 Chorismate mutase type II; Region: CM_2; cl00693 1085623003603 prephenate dehydrogenase; Provisional; Region: PRK06444 1085623003604 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 1085623003605 Chorismate mutase [Amino acid transport and metabolism]; Region: PheA; COG1605 1085623003606 Prephenate dehydratase; Region: PDT; pfam00800 1085623003607 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 1085623003608 putative L-Phe binding site [chemical binding]; other site 1085623003609 Response regulator receiver domain; Region: Response_reg; pfam00072 1085623003610 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623003611 active site 1085623003612 phosphorylation site [posttranslational modification] 1085623003613 intermolecular recognition site; other site 1085623003614 dimerization interface [polypeptide binding]; other site 1085623003615 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1085623003616 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623003617 active site 1085623003618 phosphorylation site [posttranslational modification] 1085623003619 intermolecular recognition site; other site 1085623003620 dimerization interface [polypeptide binding]; other site 1085623003621 translation initiation factor Sui1; Validated; Region: PRK06824 1085623003622 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1085623003623 putative rRNA binding site [nucleotide binding]; other site 1085623003624 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1085623003625 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1085623003626 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1085623003627 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 1085623003628 dimer interface [polypeptide binding]; other site 1085623003629 conserved gate region; other site 1085623003630 putative PBP binding loops; other site 1085623003631 ABC-ATPase subunit interface; other site 1085623003632 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 1085623003633 dimer interface [polypeptide binding]; other site 1085623003634 conserved gate region; other site 1085623003635 putative PBP binding loops; other site 1085623003636 ABC-ATPase subunit interface; other site 1085623003637 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1085623003638 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1085623003639 Walker A/P-loop; other site 1085623003640 ATP binding site [chemical binding]; other site 1085623003641 Q-loop/lid; other site 1085623003642 ABC transporter signature motif; other site 1085623003643 Walker B; other site 1085623003644 D-loop; other site 1085623003645 H-loop/switch region; other site 1085623003646 TOBE domain; Region: TOBE_2; pfam08402 1085623003647 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1085623003648 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 1085623003649 dimer interface [polypeptide binding]; other site 1085623003650 anticodon binding site; other site 1085623003651 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 1085623003652 homodimer interface [polypeptide binding]; other site 1085623003653 motif 1; other site 1085623003654 active site 1085623003655 motif 2; other site 1085623003656 GAD domain; Region: GAD; pfam02938 1085623003657 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 1085623003658 active site 1085623003659 motif 3; other site 1085623003660 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 1085623003661 nudix motif; other site 1085623003662 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 1085623003663 active site 1085623003664 putative DNA-binding cleft [nucleotide binding]; other site 1085623003665 dimer interface [polypeptide binding]; other site 1085623003666 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1085623003667 RuvA N terminal domain; Region: RuvA_N; pfam01330 1085623003668 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1085623003669 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1085623003670 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 1085623003671 Walker A motif; other site 1085623003672 ATP binding site [chemical binding]; other site 1085623003673 Walker B motif; other site 1085623003674 arginine finger; other site 1085623003675 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1085623003676 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 1085623003677 active site 1085623003678 TolQ protein; Region: tolQ; TIGR02796 1085623003679 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1085623003680 TolR protein; Region: tolR; TIGR02801 1085623003681 TolA C-terminal; Region: TolA; pfam06519 1085623003682 TolA protein; Region: tolA_full; TIGR02794 1085623003683 translocation protein TolB; Provisional; Region: tolB; PRK04792 1085623003684 TolB amino-terminal domain; Region: TolB_N; pfam04052 1085623003685 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1085623003686 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1085623003687 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1085623003688 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 1085623003689 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1085623003690 ligand binding site [chemical binding]; other site 1085623003691 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1085623003692 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 1085623003693 binding surface 1085623003694 TPR motif; other site 1085623003695 quinolinate synthetase; Provisional; Region: PRK09375 1085623003696 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 1085623003697 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1085623003698 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 1085623003699 active site 1085623003700 DNA binding site [nucleotide binding] 1085623003701 Int/Topo IB signature motif; other site 1085623003702 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1085623003703 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1085623003704 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 1085623003705 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1085623003706 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 1085623003707 Putative transposase; Region: Y2_Tnp; pfam04986 1085623003708 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1085623003709 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 1085623003710 active site 1085623003711 DNA binding site [nucleotide binding] 1085623003712 Int/Topo IB signature motif; other site 1085623003713 GIY-YIG domain of uncharacterized proteins from bacteria and their eukaryotic homologs; Region: GIY-YIG_COG3680; cd10440 1085623003714 GIY-YIG motif/motif A; other site 1085623003715 putative active site [active] 1085623003716 putative metal binding site [ion binding]; other site 1085623003717 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 1085623003718 sequence-specific DNA binding site [nucleotide binding]; other site 1085623003719 salt bridge; other site 1085623003720 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1085623003721 HD domain; Region: HD_4; pfam13328 1085623003722 Protein of unknown function (DUF429); Region: DUF429; cl12046 1085623003723 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1085623003724 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 1085623003725 putative metal binding site [ion binding]; other site 1085623003726 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 1085623003727 Restriction endonuclease; Region: Mrr_cat; pfam04471 1085623003728 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1085623003729 Helix-turn-helix domain; Region: HTH_17; pfam12728 1085623003730 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1085623003731 Protein of unknown function DUF262; Region: DUF262; pfam03235 1085623003732 Uncharacterized conserved protein [Function unknown]; Region: COG3472 1085623003733 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1085623003734 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1085623003735 AAA domain; Region: AAA_21; pfam13304 1085623003736 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1085623003737 Nuclease-related domain; Region: NERD; pfam08378 1085623003738 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1085623003739 active site 1085623003740 ATP binding site [chemical binding]; other site 1085623003741 substrate binding site [chemical binding]; other site 1085623003742 activation loop (A-loop); other site 1085623003743 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1085623003744 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1085623003745 active site 1085623003746 ATP binding site [chemical binding]; other site 1085623003747 substrate binding site [chemical binding]; other site 1085623003748 activation loop (A-loop); other site 1085623003749 AAA domain; Region: AAA_30; pfam13604 1085623003750 AAA-like domain; Region: AAA_10; pfam12846 1085623003751 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 1085623003752 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 1085623003753 active site 1085623003754 Transposase; Region: HTH_Tnp_1; cl17663 1085623003755 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1085623003756 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623003757 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623003758 metal binding site [ion binding]; metal-binding site 1085623003759 active site 1085623003760 I-site; other site 1085623003761 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1085623003762 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 1085623003763 S-adenosylmethionine binding site [chemical binding]; other site 1085623003764 HNH endonuclease; Region: HNH_4; pfam13395 1085623003765 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 1085623003766 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 1085623003767 Protein of unknown function (DUF3012); Region: DUF3012; pfam11216 1085623003768 PAS fold; Region: PAS_3; pfam08447 1085623003769 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1085623003770 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623003771 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623003772 metal binding site [ion binding]; metal-binding site 1085623003773 active site 1085623003774 I-site; other site 1085623003775 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 1085623003776 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 1085623003777 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 1085623003778 PGAP1-like protein; Region: PGAP1; pfam07819 1085623003779 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 1085623003780 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 1085623003781 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 1085623003782 Domain of unknown function (DUF3336); Region: DUF3336; pfam11815 1085623003783 Triacylglycerol lipase 3, 4, and 5 and Sugar-Dependent 1 lipase; Region: Pat_TGL3-4-5_SDP1; cd07206 1085623003784 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1085623003785 active site 1085623003786 nucleophile elbow; other site 1085623003787 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1085623003788 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 1085623003789 acyl-activating enzyme (AAE) consensus motif; other site 1085623003790 putative AMP binding site [chemical binding]; other site 1085623003791 putative active site [active] 1085623003792 putative CoA binding site [chemical binding]; other site 1085623003793 Class I hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classI; cd00643 1085623003794 tetramerization interface [polypeptide binding]; other site 1085623003795 substrate binding pocket [chemical binding]; other site 1085623003796 catalytic residues [active] 1085623003797 inhibitor binding sites; inhibition site 1085623003798 NADP(H) binding site [chemical binding]; other site 1085623003799 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_2; cd07819 1085623003800 putative hydrophobic ligand binding site [chemical binding]; other site 1085623003801 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1085623003802 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 1085623003803 S-adenosylmethionine binding site [chemical binding]; other site 1085623003804 Erythromycin esterase; Region: Erythro_esteras; pfam05139 1085623003805 Ion channel; Region: Ion_trans_2; pfam07885 1085623003806 DNA topoisomerase III; Provisional; Region: PRK07726 1085623003807 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 1085623003808 active site 1085623003809 putative interdomain interaction site [polypeptide binding]; other site 1085623003810 putative metal-binding site [ion binding]; other site 1085623003811 putative nucleotide binding site [chemical binding]; other site 1085623003812 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 1085623003813 domain I; other site 1085623003814 DNA binding groove [nucleotide binding] 1085623003815 phosphate binding site [ion binding]; other site 1085623003816 domain II; other site 1085623003817 domain III; other site 1085623003818 nucleotide binding site [chemical binding]; other site 1085623003819 catalytic site [active] 1085623003820 domain IV; other site 1085623003821 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623003822 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623003823 metal binding site [ion binding]; metal-binding site 1085623003824 active site 1085623003825 I-site; other site 1085623003826 PAS domain S-box; Region: sensory_box; TIGR00229 1085623003827 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 1085623003828 putative active site [active] 1085623003829 heme pocket [chemical binding]; other site 1085623003830 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 1085623003831 PAS fold; Region: PAS_3; pfam08447 1085623003832 putative active site [active] 1085623003833 heme pocket [chemical binding]; other site 1085623003834 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1085623003835 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 1085623003836 dimer interface [polypeptide binding]; other site 1085623003837 phosphorylation site [posttranslational modification] 1085623003838 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 1085623003839 ATP binding site [chemical binding]; other site 1085623003840 Mg2+ binding site [ion binding]; other site 1085623003841 G-X-G motif; other site 1085623003842 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623003843 Response regulator receiver domain; Region: Response_reg; pfam00072 1085623003844 active site 1085623003845 phosphorylation site [posttranslational modification] 1085623003846 intermolecular recognition site; other site 1085623003847 dimerization interface [polypeptide binding]; other site 1085623003848 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 1085623003849 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1085623003850 putative active site [active] 1085623003851 metal binding site [ion binding]; metal-binding site 1085623003852 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1085623003853 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1085623003854 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 1085623003855 putative FMN binding site [chemical binding]; other site 1085623003856 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 1085623003857 PAS domain; Region: PAS_9; pfam13426 1085623003858 putative active site [active] 1085623003859 heme pocket [chemical binding]; other site 1085623003860 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 1085623003861 PAS domain; Region: PAS_9; pfam13426 1085623003862 putative active site [active] 1085623003863 heme pocket [chemical binding]; other site 1085623003864 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1085623003865 dimer interface [polypeptide binding]; other site 1085623003866 putative CheW interface [polypeptide binding]; other site 1085623003867 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1085623003868 Protein export membrane protein; Region: SecD_SecF; cl14618 1085623003869 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 1085623003870 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1085623003871 HlyD family secretion protein; Region: HlyD_3; pfam13437 1085623003872 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1085623003873 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1085623003874 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1085623003875 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1085623003876 MarR family; Region: MarR; pfam01047 1085623003877 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 1085623003878 FOG: CBS domain [General function prediction only]; Region: COG0517 1085623003879 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 1085623003880 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1085623003881 HlyD family secretion protein; Region: HlyD_3; pfam13437 1085623003882 DevC protein; Region: devC; TIGR01185 1085623003883 FtsX-like permease family; Region: FtsX; pfam02687 1085623003884 ABC exporter ATP-binding subunit, DevA family; Region: heterocyst_DevA; TIGR02982 1085623003885 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1085623003886 Walker A/P-loop; other site 1085623003887 ATP binding site [chemical binding]; other site 1085623003888 Q-loop/lid; other site 1085623003889 ABC transporter signature motif; other site 1085623003890 Walker B; other site 1085623003891 D-loop; other site 1085623003892 H-loop/switch region; other site 1085623003893 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1085623003894 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 1085623003895 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1085623003896 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 1085623003897 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1085623003898 Walker A motif; other site 1085623003899 ATP binding site [chemical binding]; other site 1085623003900 Walker B motif; other site 1085623003901 arginine finger; other site 1085623003902 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1085623003903 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1085623003904 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 1085623003905 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1085623003906 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1085623003907 Putative phosphatase (DUF442); Region: DUF442; cl17385 1085623003908 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1085623003909 classical (c) SDRs; Region: SDR_c; cd05233 1085623003910 NAD(P) binding site [chemical binding]; other site 1085623003911 active site 1085623003912 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 1085623003913 putative hydrophobic ligand binding site [chemical binding]; other site 1085623003914 protein interface [polypeptide binding]; other site 1085623003915 gate; other site 1085623003916 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1085623003917 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 1085623003918 PA/protease or protease-like domain interface [polypeptide binding]; other site 1085623003919 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 1085623003920 Peptidase family M28; Region: Peptidase_M28; pfam04389 1085623003921 metal binding site [ion binding]; metal-binding site 1085623003922 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1085623003923 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1085623003924 AsnC family; Region: AsnC_trans_reg; pfam01037 1085623003925 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623003926 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623003927 metal binding site [ion binding]; metal-binding site 1085623003928 active site 1085623003929 I-site; other site 1085623003930 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1085623003931 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 1085623003932 N-terminal plug; other site 1085623003933 ligand-binding site [chemical binding]; other site 1085623003934 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1085623003935 Protein of unknown function (DUF983); Region: DUF983; cl02211 1085623003936 Protein export membrane protein; Region: SecD_SecF; cl14618 1085623003937 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1085623003938 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1085623003939 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 1085623003940 putative dimer interface [polypeptide binding]; other site 1085623003941 putative anticodon binding site; other site 1085623003942 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 1085623003943 homodimer interface [polypeptide binding]; other site 1085623003944 motif 1; other site 1085623003945 motif 2; other site 1085623003946 active site 1085623003947 motif 3; other site 1085623003948 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1085623003949 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 1085623003950 dimer interface [polypeptide binding]; other site 1085623003951 phosphorylation site [posttranslational modification] 1085623003952 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 1085623003953 ATP binding site [chemical binding]; other site 1085623003954 Mg2+ binding site [ion binding]; other site 1085623003955 G-X-G motif; other site 1085623003956 response regulator GlrR; Provisional; Region: PRK15115 1085623003957 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623003958 active site 1085623003959 phosphorylation site [posttranslational modification] 1085623003960 intermolecular recognition site; other site 1085623003961 dimerization interface [polypeptide binding]; other site 1085623003962 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 1085623003963 Walker A motif; other site 1085623003964 ATP binding site [chemical binding]; other site 1085623003965 Walker B motif; other site 1085623003966 arginine finger; other site 1085623003967 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1085623003968 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 1085623003969 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 1085623003970 inhibitor-cofactor binding pocket; inhibition site 1085623003971 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1085623003972 catalytic residue [active] 1085623003973 biotin synthase; Provisional; Region: PRK15108 1085623003974 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 1085623003975 FeS/SAM binding site; other site 1085623003976 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1085623003977 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 1085623003978 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 1085623003979 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1085623003980 catalytic residue [active] 1085623003981 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1085623003982 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 1085623003983 S-adenosylmethionine binding site [chemical binding]; other site 1085623003984 AAA domain; Region: AAA_26; pfam13500 1085623003985 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1085623003986 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 1085623003987 active site pocket [active] 1085623003988 oxyanion hole [active] 1085623003989 catalytic triad [active] 1085623003990 active site nucleophile [active] 1085623003991 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1085623003992 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1085623003993 active site 1085623003994 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1085623003995 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 1085623003996 ABC-ATPase subunit interface; other site 1085623003997 dimer interface [polypeptide binding]; other site 1085623003998 putative PBP binding regions; other site 1085623003999 glycerol kinase; Provisional; Region: glpK; PRK00047 1085623004000 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1085623004001 N- and C-terminal domain interface [polypeptide binding]; other site 1085623004002 active site 1085623004003 MgATP binding site [chemical binding]; other site 1085623004004 catalytic site [active] 1085623004005 metal binding site [ion binding]; metal-binding site 1085623004006 glycerol binding site [chemical binding]; other site 1085623004007 homotetramer interface [polypeptide binding]; other site 1085623004008 homodimer interface [polypeptide binding]; other site 1085623004009 FBP binding site [chemical binding]; other site 1085623004010 protein IIAGlc interface [polypeptide binding]; other site 1085623004011 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1085623004012 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1085623004013 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1085623004014 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1085623004015 Walker A/P-loop; other site 1085623004016 ATP binding site [chemical binding]; other site 1085623004017 Q-loop/lid; other site 1085623004018 ABC transporter signature motif; other site 1085623004019 Walker B; other site 1085623004020 D-loop; other site 1085623004021 H-loop/switch region; other site 1085623004022 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1085623004023 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1085623004024 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1085623004025 nucleotide binding site [chemical binding]; other site 1085623004026 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1085623004027 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 1085623004028 putative substrate translocation pore; other site 1085623004029 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1085623004030 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1085623004031 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 1085623004032 Alpha amylase catalytic domain found in Amylosucrase; Region: AmyAc_Amylosucrase; cd11324 1085623004033 trehalose synthase; Region: treS_nterm; TIGR02456 1085623004034 active site 1085623004035 catalytic site [active] 1085623004036 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1085623004037 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1085623004038 DNA binding site [nucleotide binding] 1085623004039 domain linker motif; other site 1085623004040 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_3; cd06279 1085623004041 putative dimerization interface [polypeptide binding]; other site 1085623004042 putative ligand binding site [chemical binding]; other site 1085623004043 CHRD domain; Region: CHRD; pfam07452 1085623004044 CHRD domain; Region: CHRD; pfam07452 1085623004045 CHRD domain; Region: CHRD; pfam07452 1085623004046 CHRD domain; Region: CHRD; pfam07452 1085623004047 CHRD domain; Region: CHRD; pfam07452 1085623004048 CHRD domain; Region: CHRD; pfam07452 1085623004049 CHRD domain; Region: CHRD; pfam07452 1085623004050 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1085623004051 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1085623004052 NAD(P) binding site [chemical binding]; other site 1085623004053 putative active site [active] 1085623004054 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1085623004055 Rrf2 family protein; Region: rrf2_super; TIGR00738 1085623004056 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1085623004057 putative ABC transporter; Region: ycf24; CHL00085 1085623004058 FeS assembly ATPase SufC; Region: sufC; TIGR01978 1085623004059 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1085623004060 Walker A/P-loop; other site 1085623004061 ATP binding site [chemical binding]; other site 1085623004062 Q-loop/lid; other site 1085623004063 ABC transporter signature motif; other site 1085623004064 Walker B; other site 1085623004065 D-loop; other site 1085623004066 H-loop/switch region; other site 1085623004067 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1085623004068 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 1085623004069 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1085623004070 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 1085623004071 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1085623004072 catalytic residue [active] 1085623004073 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1085623004074 Domain of unknown function DUF59; Region: DUF59; cl00941 1085623004075 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 1085623004076 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 1085623004077 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1085623004078 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1085623004079 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1085623004080 Walker A/P-loop; other site 1085623004081 ATP binding site [chemical binding]; other site 1085623004082 Q-loop/lid; other site 1085623004083 ABC transporter signature motif; other site 1085623004084 Walker B; other site 1085623004085 D-loop; other site 1085623004086 H-loop/switch region; other site 1085623004087 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1085623004088 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1085623004089 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 1085623004090 active site 1085623004091 metal binding site [ion binding]; metal-binding site 1085623004092 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1085623004093 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1085623004094 HIGH motif; other site 1085623004095 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1085623004096 active site 1085623004097 KMSKS motif; other site 1085623004098 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 1085623004099 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 1085623004100 FMN binding site [chemical binding]; other site 1085623004101 active site 1085623004102 catalytic residues [active] 1085623004103 substrate binding site [chemical binding]; other site 1085623004104 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1085623004105 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 1085623004106 active site 1085623004107 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1085623004108 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 1085623004109 active site 1085623004110 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 1085623004111 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 1085623004112 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 1085623004113 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1085623004114 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1085623004115 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1085623004116 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 1085623004117 dimerization interface [polypeptide binding]; other site 1085623004118 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 1085623004119 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1085623004120 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1085623004121 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1085623004122 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 1085623004123 sequence-specific DNA binding site [nucleotide binding]; other site 1085623004124 salt bridge; other site 1085623004125 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1085623004126 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 1085623004127 oxyanion hole (OAH) forming residues; other site 1085623004128 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1085623004129 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 1085623004130 active site 1085623004131 catalytic triad [active] 1085623004132 oxyanion hole [active] 1085623004133 switch loop; other site 1085623004134 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1085623004135 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1085623004136 Walker A/P-loop; other site 1085623004137 ATP binding site [chemical binding]; other site 1085623004138 Q-loop/lid; other site 1085623004139 ABC transporter signature motif; other site 1085623004140 Walker B; other site 1085623004141 D-loop; other site 1085623004142 H-loop/switch region; other site 1085623004143 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1085623004144 FtsX-like permease family; Region: FtsX; pfam02687 1085623004145 FtsX-like permease family; Region: FtsX; pfam02687 1085623004146 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1085623004147 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1085623004148 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623004149 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623004150 metal binding site [ion binding]; metal-binding site 1085623004151 active site 1085623004152 I-site; other site 1085623004153 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 1085623004154 membrane-bound complex binding site; other site 1085623004155 hinge residues; other site 1085623004156 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 1085623004157 substrate binding pocket [chemical binding]; other site 1085623004158 membrane-bound complex binding site; other site 1085623004159 hinge residues; other site 1085623004160 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 1085623004161 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1085623004162 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 1085623004163 TIGR01777 family protein; Region: yfcH 1085623004164 putative NAD(P) binding site [chemical binding]; other site 1085623004165 putative active site [active] 1085623004166 D-erythro-7,8-dihydroneopterin triphosphate 2'-epimerase; Provisional; Region: folX; PRK11245 1085623004167 active site 1085623004168 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1085623004169 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1085623004170 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 1085623004171 sensor protein PhoQ; Provisional; Region: PRK10815 1085623004172 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 1085623004173 ATP binding site [chemical binding]; other site 1085623004174 Mg2+ binding site [ion binding]; other site 1085623004175 G-X-G motif; other site 1085623004176 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1085623004177 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623004178 active site 1085623004179 phosphorylation site [posttranslational modification] 1085623004180 intermolecular recognition site; other site 1085623004181 dimerization interface [polypeptide binding]; other site 1085623004182 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 1085623004183 DNA binding site [nucleotide binding] 1085623004184 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1085623004185 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1085623004186 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1085623004187 hypothetical protein; Provisional; Region: PRK09256 1085623004188 YciI-like protein; Reviewed; Region: PRK11370 1085623004189 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1085623004190 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 1085623004191 substrate binding site [chemical binding]; other site 1085623004192 active site 1085623004193 catalytic residues [active] 1085623004194 heterodimer interface [polypeptide binding]; other site 1085623004195 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1085623004196 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 1085623004197 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1085623004198 catalytic residue [active] 1085623004199 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 1085623004200 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 1085623004201 active site 1085623004202 ribulose/triose binding site [chemical binding]; other site 1085623004203 phosphate binding site [ion binding]; other site 1085623004204 substrate (anthranilate) binding pocket [chemical binding]; other site 1085623004205 product (indole) binding pocket [chemical binding]; other site 1085623004206 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 1085623004207 active site 1085623004208 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1085623004209 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1085623004210 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1085623004211 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1085623004212 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1085623004213 glutamine binding [chemical binding]; other site 1085623004214 catalytic triad [active] 1085623004215 anthranilate synthase component I; Provisional; Region: PRK13564 1085623004216 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1085623004217 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1085623004218 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1085623004219 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1085623004220 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1085623004221 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1085623004222 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1085623004223 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1085623004224 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 1085623004225 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 1085623004226 RNA binding surface [nucleotide binding]; other site 1085623004227 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1085623004228 probable active site [active] 1085623004229 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1085623004230 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1085623004231 dimerization interface 3.5A [polypeptide binding]; other site 1085623004232 active site 1085623004233 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1085623004234 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1085623004235 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1085623004236 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 1085623004237 Sporulation related domain; Region: SPOR; pfam05036 1085623004238 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1085623004239 Colicin V production protein; Region: Colicin_V; cl00567 1085623004240 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1085623004241 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 1085623004242 active site 1085623004243 tetramer interface [polypeptide binding]; other site 1085623004244 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1085623004245 active site 1085623004246 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1085623004247 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1085623004248 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 1085623004249 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1085623004250 homodimer interface [polypeptide binding]; other site 1085623004251 catalytic residue [active] 1085623004252 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 1085623004253 LemA family; Region: LemA; cl00742 1085623004254 maltose O-acetyltransferase; Provisional; Region: PRK10092 1085623004255 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 1085623004256 active site 1085623004257 substrate binding site [chemical binding]; other site 1085623004258 trimer interface [polypeptide binding]; other site 1085623004259 CoA binding site [chemical binding]; other site 1085623004260 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1085623004261 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1085623004262 HlyD family secretion protein; Region: HlyD_3; pfam13437 1085623004263 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1085623004264 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1085623004265 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 1085623004266 active site 1085623004267 dinuclear metal binding site [ion binding]; other site 1085623004268 dimerization interface [polypeptide binding]; other site 1085623004269 cellulose synthase A (UDP-forming), catalytic subunit; Region: PLN02638 1085623004270 MAPEG family; Region: MAPEG; pfam01124 1085623004271 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1085623004272 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1085623004273 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 1085623004274 dimer interface [polypeptide binding]; other site 1085623004275 Alkaline phosphatase homologues; Region: alkPPc; smart00098 1085623004276 active site 1085623004277 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 1085623004278 Alkaline phosphatase homologues; Region: alkPPc; smart00098 1085623004279 active site 1085623004280 dimer interface [polypeptide binding]; other site 1085623004281 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1085623004282 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1085623004283 putative active site [active] 1085623004284 putative metal binding site [ion binding]; other site 1085623004285 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 1085623004286 substrate binding site [chemical binding]; other site 1085623004287 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1085623004288 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1085623004289 active site 1085623004290 HIGH motif; other site 1085623004291 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1085623004292 KMSKS motif; other site 1085623004293 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1085623004294 tRNA binding surface [nucleotide binding]; other site 1085623004295 anticodon binding site; other site 1085623004296 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 1085623004297 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1085623004298 catalytic residue [active] 1085623004299 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1085623004300 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1085623004301 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1085623004302 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1085623004303 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1085623004304 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 1085623004305 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 1085623004306 ATP binding site [chemical binding]; other site 1085623004307 putative Mg++ binding site [ion binding]; other site 1085623004308 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 1085623004309 nucleotide binding region [chemical binding]; other site 1085623004310 ATP-binding site [chemical binding]; other site 1085623004311 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1085623004312 HRDC domain; Region: HRDC; pfam00570 1085623004313 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1085623004314 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 1085623004315 putative substrate translocation pore; other site 1085623004316 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 1085623004317 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 1085623004318 active site 1085623004319 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1085623004320 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1085623004321 active site 1085623004322 KMSKS motif; other site 1085623004323 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1085623004324 tRNA binding surface [nucleotide binding]; other site 1085623004325 anticodon binding site; other site 1085623004326 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 1085623004327 dimer interface [polypeptide binding]; other site 1085623004328 putative tRNA-binding site [nucleotide binding]; other site 1085623004329 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1085623004330 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 1085623004331 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1085623004332 trimer interface [polypeptide binding]; other site 1085623004333 active site 1085623004334 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1085623004335 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1085623004336 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1085623004337 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 1085623004338 putative active site [active] 1085623004339 heme pocket [chemical binding]; other site 1085623004340 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 1085623004341 dimer interface [polypeptide binding]; other site 1085623004342 phosphorylation site [posttranslational modification] 1085623004343 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 1085623004344 ATP binding site [chemical binding]; other site 1085623004345 Mg2+ binding site [ion binding]; other site 1085623004346 G-X-G motif; other site 1085623004347 Response regulator receiver domain; Region: Response_reg; pfam00072 1085623004348 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623004349 active site 1085623004350 phosphorylation site [posttranslational modification] 1085623004351 intermolecular recognition site; other site 1085623004352 dimerization interface [polypeptide binding]; other site 1085623004353 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 1085623004354 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 1085623004355 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1085623004356 Walker A/P-loop; other site 1085623004357 ATP binding site [chemical binding]; other site 1085623004358 Q-loop/lid; other site 1085623004359 ABC transporter signature motif; other site 1085623004360 Walker B; other site 1085623004361 D-loop; other site 1085623004362 H-loop/switch region; other site 1085623004363 TOBE domain; Region: TOBE; pfam03459 1085623004364 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1085623004365 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 1085623004366 dimer interface [polypeptide binding]; other site 1085623004367 conserved gate region; other site 1085623004368 putative PBP binding loops; other site 1085623004369 ABC-ATPase subunit interface; other site 1085623004370 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1085623004371 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1085623004372 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 1085623004373 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 1085623004374 active site 1085623004375 Zn binding site [ion binding]; other site 1085623004376 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 1085623004377 DNA translocase FtsK; Provisional; Region: PRK10263 1085623004378 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1085623004379 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 1085623004380 dimerization interface [polypeptide binding]; other site 1085623004381 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 1085623004382 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 1085623004383 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1085623004384 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1085623004385 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1085623004386 Coenzyme A binding pocket [chemical binding]; other site 1085623004387 Peptidase_C39 like family; Region: DUF3335; pfam11814 1085623004388 Uncharacterized ACR, YagE family COG1723; Region: DUF155; cl00751 1085623004389 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 1085623004390 binding surface 1085623004391 TPR motif; other site 1085623004392 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 1085623004393 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 1085623004394 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 1085623004395 Nudix hydrolase homolog; Region: PLN02791 1085623004396 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1085623004397 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1085623004398 active site 1085623004399 NTP binding site [chemical binding]; other site 1085623004400 metal binding triad [ion binding]; metal-binding site 1085623004401 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1085623004402 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 1085623004403 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 1085623004404 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1085623004405 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1085623004406 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1085623004407 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1085623004408 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 1085623004409 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 1085623004410 Domain interface; other site 1085623004411 Peptide binding site; other site 1085623004412 Active site tetrad [active] 1085623004413 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1085623004414 Strictosidine synthase; Region: Str_synth; pfam03088 1085623004415 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1085623004416 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1085623004417 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1085623004418 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1085623004419 Walker A/P-loop; other site 1085623004420 ATP binding site [chemical binding]; other site 1085623004421 Q-loop/lid; other site 1085623004422 ABC transporter signature motif; other site 1085623004423 Walker B; other site 1085623004424 D-loop; other site 1085623004425 H-loop/switch region; other site 1085623004426 ABC transporter; Region: ABC_tran_2; pfam12848 1085623004427 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1085623004428 putative mechanosensitive channel protein; Provisional; Region: PRK10929 1085623004429 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1085623004430 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1085623004431 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1085623004432 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 1085623004433 Walker A/P-loop; other site 1085623004434 ATP binding site [chemical binding]; other site 1085623004435 Q-loop/lid; other site 1085623004436 ABC transporter signature motif; other site 1085623004437 Walker B; other site 1085623004438 D-loop; other site 1085623004439 H-loop/switch region; other site 1085623004440 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1085623004441 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1085623004442 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1085623004443 Zn binding site [ion binding]; other site 1085623004444 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 1085623004445 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1085623004446 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1085623004447 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1085623004448 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1085623004449 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1085623004450 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1085623004451 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1085623004452 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1085623004453 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1085623004454 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1085623004455 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1085623004456 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1085623004457 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1085623004458 active site 1085623004459 ATP binding site [chemical binding]; other site 1085623004460 substrate binding site [chemical binding]; other site 1085623004461 activation loop (A-loop); other site 1085623004462 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1085623004463 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1085623004464 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1085623004465 phosphopeptide binding site; other site 1085623004466 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 1085623004467 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1085623004468 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1085623004469 GTP binding site; other site 1085623004470 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 1085623004471 TPR motif; other site 1085623004472 binding surface 1085623004473 TPR repeat; Region: TPR_11; pfam13414 1085623004474 Putative 2OG-Fe(II) oxygenase; Region: 2OG-FeII_Oxy_5; pfam13759 1085623004475 Domon-like ligand-binding domains; Region: DOMON_like; cd00241 1085623004476 putative ligand binding site [chemical binding]; other site 1085623004477 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1085623004478 ApbE family; Region: ApbE; pfam02424 1085623004479 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 1085623004480 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 1085623004481 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 1085623004482 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1085623004483 catalytic residues [active] 1085623004484 Protein of unknown function (DUF1624); Region: DUF1624; pfam07786 1085623004485 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1085623004486 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1085623004487 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 1085623004488 dimer interface [polypeptide binding]; other site 1085623004489 phosphorylation site [posttranslational modification] 1085623004490 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 1085623004491 ATP binding site [chemical binding]; other site 1085623004492 Mg2+ binding site [ion binding]; other site 1085623004493 G-X-G motif; other site 1085623004494 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1085623004495 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623004496 active site 1085623004497 phosphorylation site [posttranslational modification] 1085623004498 intermolecular recognition site; other site 1085623004499 dimerization interface [polypeptide binding]; other site 1085623004500 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 1085623004501 DNA binding site [nucleotide binding] 1085623004502 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1085623004503 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1085623004504 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1085623004505 D-lactate dehydrogenase; Provisional; Region: PRK11183 1085623004506 FAD binding domain; Region: FAD_binding_4; pfam01565 1085623004507 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1085623004508 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1085623004509 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1085623004510 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1085623004511 PAS fold; Region: PAS_3; pfam08447 1085623004512 PAS domain; Region: PAS_9; pfam13426 1085623004513 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623004514 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623004515 metal binding site [ion binding]; metal-binding site 1085623004516 active site 1085623004517 I-site; other site 1085623004518 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 1085623004519 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1085623004520 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 1085623004521 acyl-activating enzyme (AAE) consensus motif; other site 1085623004522 putative AMP binding site [chemical binding]; other site 1085623004523 putative active site [active] 1085623004524 putative CoA binding site [chemical binding]; other site 1085623004525 PBP superfamily domain; Region: PBP_like_2; cl17296 1085623004526 dUTPase; Region: dUTPase_2; pfam08761 1085623004527 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 1085623004528 active site 1085623004529 homodimer interface [polypeptide binding]; other site 1085623004530 metal binding site [ion binding]; metal-binding site 1085623004531 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1085623004532 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 1085623004533 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 1085623004534 Part of AAA domain; Region: AAA_19; pfam13245 1085623004535 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1085623004536 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 1085623004537 AAA domain; Region: AAA_30; pfam13604 1085623004538 Influenza Matrix protein (M1); Region: Flu_M1; pfam00598 1085623004539 Family description; Region: UvrD_C_2; pfam13538 1085623004540 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 1085623004541 active site 1085623004542 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 1085623004543 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1085623004544 FeS/SAM binding site; other site 1085623004545 HemN C-terminal domain; Region: HemN_C; pfam06969 1085623004546 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 1085623004547 catalytic core [active] 1085623004548 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1085623004549 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1085623004550 active site 1085623004551 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 1085623004552 Phosphotransferase enzyme family; Region: APH; pfam01636 1085623004553 putative active site [active] 1085623004554 putative substrate binding site [chemical binding]; other site 1085623004555 ATP binding site [chemical binding]; other site 1085623004556 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1085623004557 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1085623004558 NAD(P) binding site [chemical binding]; other site 1085623004559 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 1085623004560 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1085623004561 classical (c) SDRs; Region: SDR_c; cd05233 1085623004562 NAD(P) binding site [chemical binding]; other site 1085623004563 active site 1085623004564 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 1085623004565 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1085623004566 substrate binding site [chemical binding]; other site 1085623004567 oxyanion hole (OAH) forming residues; other site 1085623004568 trimer interface [polypeptide binding]; other site 1085623004569 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1085623004570 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1085623004571 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1085623004572 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1085623004573 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1085623004574 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1085623004575 active site 1085623004576 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1085623004577 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1085623004578 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1085623004579 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1085623004580 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 1085623004581 substrate binding pocket [chemical binding]; other site 1085623004582 dimerization interface [polypeptide binding]; other site 1085623004583 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 1085623004584 active site 2 [active] 1085623004585 active site 1 [active] 1085623004586 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1085623004587 nucleophile elbow; other site 1085623004588 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1085623004589 Protein of unknown function DUF262; Region: DUF262; pfam03235 1085623004590 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1085623004591 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 1085623004592 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1085623004593 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1085623004594 BsuBI/PstI restriction endonuclease C-terminus; Region: BsuBI_PstI_RE; pfam06616 1085623004595 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 1085623004596 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1085623004597 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1085623004598 catalytic residues [active] 1085623004599 catalytic nucleophile [active] 1085623004600 Recombinase; Region: Recombinase; pfam07508 1085623004601 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1085623004602 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_b; cd00914 1085623004603 aromatic arch; other site 1085623004604 DCoH dimer interaction site [polypeptide binding]; other site 1085623004605 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1085623004606 DCoH tetramer interaction site [polypeptide binding]; other site 1085623004607 substrate binding site [chemical binding]; other site 1085623004608 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1085623004609 Sm and related proteins; Region: Sm_like; cl00259 1085623004610 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1085623004611 putative oligomer interface [polypeptide binding]; other site 1085623004612 putative RNA binding site [nucleotide binding]; other site 1085623004613 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1085623004614 NusA N-terminal domain; Region: NusA_N; pfam08529 1085623004615 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 1085623004616 RNA binding site [nucleotide binding]; other site 1085623004617 homodimer interface [polypeptide binding]; other site 1085623004618 NusA-like KH domain; Region: KH_5; pfam13184 1085623004619 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 1085623004620 G-X-X-G motif; other site 1085623004621 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1085623004622 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1085623004623 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1085623004624 translation initiation factor IF-2; Region: IF-2; TIGR00487 1085623004625 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1085623004626 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1085623004627 G1 box; other site 1085623004628 putative GEF interaction site [polypeptide binding]; other site 1085623004629 GTP/Mg2+ binding site [chemical binding]; other site 1085623004630 Switch I region; other site 1085623004631 G2 box; other site 1085623004632 G3 box; other site 1085623004633 Switch II region; other site 1085623004634 G4 box; other site 1085623004635 G5 box; other site 1085623004636 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 1085623004637 Translation-initiation factor 2; Region: IF-2; pfam11987 1085623004638 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 1085623004639 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1085623004640 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1085623004641 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1085623004642 RNA binding site [nucleotide binding]; other site 1085623004643 active site 1085623004644 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1085623004645 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 1085623004646 16S/18S rRNA binding site [nucleotide binding]; other site 1085623004647 S13e-L30e interaction site [polypeptide binding]; other site 1085623004648 25S rRNA binding site [nucleotide binding]; other site 1085623004649 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1085623004650 PAS domain S-box; Region: sensory_box; TIGR00229 1085623004651 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 1085623004652 putative active site [active] 1085623004653 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623004654 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623004655 metal binding site [ion binding]; metal-binding site 1085623004656 active site 1085623004657 I-site; other site 1085623004658 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 1085623004659 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1085623004660 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 1085623004661 tetramer interface [polypeptide binding]; other site 1085623004662 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1085623004663 catalytic residue [active] 1085623004664 Protein of unknown function DUF262; Region: DUF262; pfam03235 1085623004665 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1085623004666 Protein of unknown function DUF262; Region: DUF262; pfam03235 1085623004667 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1085623004668 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1085623004669 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1085623004670 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1085623004671 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1085623004672 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1085623004673 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1085623004674 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1085623004675 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1085623004676 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 1085623004677 ATP binding site [chemical binding]; other site 1085623004678 putative Mg++ binding site [ion binding]; other site 1085623004679 Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Region: PKD; smart00089 1085623004680 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 1085623004681 FOG: PKD repeat [General function prediction only]; Region: COG3291 1085623004682 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 1085623004683 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 1085623004684 active site 1085623004685 catalytic triad [active] 1085623004686 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1085623004687 Transposase; Region: HTH_Tnp_1; pfam01527 1085623004688 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 1085623004689 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 1085623004690 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1085623004691 active site 1085623004692 metal binding site [ion binding]; metal-binding site 1085623004693 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 1085623004694 integrase; Provisional; Region: PRK09692 1085623004695 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 1085623004696 active site 1085623004697 Int/Topo IB signature motif; other site 1085623004698 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1085623004699 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 1085623004700 putative active site [active] 1085623004701 putative FMN binding site [chemical binding]; other site 1085623004702 putative substrate binding site [chemical binding]; other site 1085623004703 putative catalytic residue [active] 1085623004704 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 1085623004705 SmpB-tmRNA interface; other site 1085623004706 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1085623004707 putative coenzyme Q binding site [chemical binding]; other site 1085623004708 hypothetical protein; Validated; Region: PRK01777 1085623004709 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1085623004710 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1085623004711 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1085623004712 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1085623004713 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1085623004714 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1085623004715 FAD binding domain; Region: FAD_binding_4; pfam01565 1085623004716 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1085623004717 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1085623004718 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1085623004719 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 1085623004720 dimerization interface [polypeptide binding]; other site 1085623004721 substrate binding pocket [chemical binding]; other site 1085623004722 Protein of unknown function (DUF423); Region: DUF423; pfam04241 1085623004723 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1085623004724 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1085623004725 elongation factor G; Reviewed; Region: PRK00007 1085623004726 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1085623004727 G1 box; other site 1085623004728 putative GEF interaction site [polypeptide binding]; other site 1085623004729 GTP/Mg2+ binding site [chemical binding]; other site 1085623004730 Switch I region; other site 1085623004731 G2 box; other site 1085623004732 G3 box; other site 1085623004733 Switch II region; other site 1085623004734 G4 box; other site 1085623004735 G5 box; other site 1085623004736 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 1085623004737 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 1085623004738 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 1085623004739 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 1085623004740 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1085623004741 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1085623004742 Protein of unknown function DUF58; Region: DUF58; pfam01882 1085623004743 MoxR-like ATPases [General function prediction only]; Region: COG0714 1085623004744 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 1085623004745 Walker A motif; other site 1085623004746 ATP binding site [chemical binding]; other site 1085623004747 Walker B motif; other site 1085623004748 arginine finger; other site 1085623004749 phosphoglucomutase; Validated; Region: PRK07564 1085623004750 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 1085623004751 active site 1085623004752 substrate binding site [chemical binding]; other site 1085623004753 metal binding site [ion binding]; metal-binding site 1085623004754 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 1085623004755 homodimer interface [polypeptide binding]; other site 1085623004756 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1085623004757 active site pocket [active] 1085623004758 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623004759 metal binding site [ion binding]; metal-binding site 1085623004760 active site 1085623004761 I-site; other site 1085623004762 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 1085623004763 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 1085623004764 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1085623004765 putative active site [active] 1085623004766 Zn binding site [ion binding]; other site 1085623004767 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1085623004768 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1085623004769 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1085623004770 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1085623004771 metal binding site [ion binding]; metal-binding site 1085623004772 dimer interface [polypeptide binding]; other site 1085623004773 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 1085623004774 ArsC family; Region: ArsC; pfam03960 1085623004775 putative catalytic residues [active] 1085623004776 Uncharacterized conserved protein [Function unknown]; Region: COG3603 1085623004777 Family description; Region: ACT_7; pfam13840 1085623004778 Response regulator receiver domain; Region: Response_reg; pfam00072 1085623004779 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623004780 active site 1085623004781 phosphorylation site [posttranslational modification] 1085623004782 intermolecular recognition site; other site 1085623004783 dimerization interface [polypeptide binding]; other site 1085623004784 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623004785 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623004786 metal binding site [ion binding]; metal-binding site 1085623004787 active site 1085623004788 I-site; other site 1085623004789 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 1085623004790 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1085623004791 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 1085623004792 putative active site [active] 1085623004793 heme pocket [chemical binding]; other site 1085623004794 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 1085623004795 dimer interface [polypeptide binding]; other site 1085623004796 phosphorylation site [posttranslational modification] 1085623004797 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 1085623004798 ATP binding site [chemical binding]; other site 1085623004799 Mg2+ binding site [ion binding]; other site 1085623004800 G-X-G motif; other site 1085623004801 Response regulator receiver domain; Region: Response_reg; pfam00072 1085623004802 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623004803 active site 1085623004804 phosphorylation site [posttranslational modification] 1085623004805 intermolecular recognition site; other site 1085623004806 dimerization interface [polypeptide binding]; other site 1085623004807 Response regulator receiver domain; Region: Response_reg; pfam00072 1085623004808 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623004809 active site 1085623004810 phosphorylation site [posttranslational modification] 1085623004811 intermolecular recognition site; other site 1085623004812 dimerization interface [polypeptide binding]; other site 1085623004813 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 1085623004814 Hpt domain; Region: Hpt; pfam01627 1085623004815 Phage terminase, small subunit; Region: Terminase_4; cl01525 1085623004816 Phage portal protein; Region: Phage_portal; pfam04860 1085623004817 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1085623004818 PAS domain; Region: PAS_9; pfam13426 1085623004819 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 1085623004820 putative active site [active] 1085623004821 heme pocket [chemical binding]; other site 1085623004822 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623004823 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623004824 metal binding site [ion binding]; metal-binding site 1085623004825 active site 1085623004826 I-site; other site 1085623004827 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 1085623004828 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 1085623004829 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 1085623004830 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1085623004831 catalytic residue [active] 1085623004832 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1085623004833 GAF domain; Region: GAF; pfam01590 1085623004834 GAF domain; Region: GAF_2; pfam13185 1085623004835 GAF domain; Region: GAF; cl17456 1085623004836 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623004837 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623004838 metal binding site [ion binding]; metal-binding site 1085623004839 active site 1085623004840 I-site; other site 1085623004841 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 1085623004842 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 1085623004843 PAS fold; Region: PAS_3; pfam08447 1085623004844 putative active site [active] 1085623004845 heme pocket [chemical binding]; other site 1085623004846 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1085623004847 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1085623004848 dimer interface [polypeptide binding]; other site 1085623004849 putative CheW interface [polypeptide binding]; other site 1085623004850 PAS domain; Region: PAS_9; pfam13426 1085623004851 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 1085623004852 putative active site [active] 1085623004853 heme pocket [chemical binding]; other site 1085623004854 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1085623004855 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1085623004856 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 1085623004857 anti sigma factor interaction site; other site 1085623004858 regulatory phosphorylation site [posttranslational modification]; other site 1085623004859 Response regulator receiver domain; Region: Response_reg; pfam00072 1085623004860 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623004861 active site 1085623004862 phosphorylation site [posttranslational modification] 1085623004863 intermolecular recognition site; other site 1085623004864 dimerization interface [polypeptide binding]; other site 1085623004865 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 1085623004866 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1085623004867 putative binding surface; other site 1085623004868 active site 1085623004869 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1085623004870 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 1085623004871 ATP binding site [chemical binding]; other site 1085623004872 Mg2+ binding site [ion binding]; other site 1085623004873 G-X-G motif; other site 1085623004874 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 1085623004875 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 1085623004876 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 1085623004877 putative CheA interaction surface; other site 1085623004878 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 1085623004879 heme-binding site [chemical binding]; other site 1085623004880 PAS domain; Region: PAS; smart00091 1085623004881 PAS domain; Region: PAS_9; pfam13426 1085623004882 PAS domain; Region: PAS; smart00091 1085623004883 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1085623004884 PAS domain; Region: PAS; smart00091 1085623004885 PAS domain; Region: PAS_9; pfam13426 1085623004886 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1085623004887 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1085623004888 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1085623004889 dimer interface [polypeptide binding]; other site 1085623004890 putative CheW interface [polypeptide binding]; other site 1085623004891 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1085623004892 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1085623004893 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 1085623004894 CheD chemotactic sensory transduction; Region: CheD; cl00810 1085623004895 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1085623004896 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623004897 active site 1085623004898 phosphorylation site [posttranslational modification] 1085623004899 intermolecular recognition site; other site 1085623004900 dimerization interface [polypeptide binding]; other site 1085623004901 CheB methylesterase; Region: CheB_methylest; pfam01339 1085623004902 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1085623004903 dimer interface [polypeptide binding]; other site 1085623004904 putative CheW interface [polypeptide binding]; other site 1085623004905 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 1085623004906 anti sigma factor interaction site; other site 1085623004907 regulatory phosphorylation site [posttranslational modification]; other site 1085623004908 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623004909 Response regulator receiver domain; Region: Response_reg; pfam00072 1085623004910 active site 1085623004911 phosphorylation site [posttranslational modification] 1085623004912 intermolecular recognition site; other site 1085623004913 dimerization interface [polypeptide binding]; other site 1085623004914 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1085623004915 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1085623004916 Protein of unknown function (DUF3080); Region: DUF3080; pfam11279 1085623004917 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1085623004918 hydrophobic ligand binding site; other site 1085623004919 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1085623004920 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 1085623004921 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1085623004922 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 1085623004923 active site 1085623004924 dimer interface [polypeptide binding]; other site 1085623004925 motif 1; other site 1085623004926 motif 2; other site 1085623004927 motif 3; other site 1085623004928 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 1085623004929 anticodon binding site; other site 1085623004930 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1085623004931 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1085623004932 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1085623004933 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1085623004934 23S rRNA binding site [nucleotide binding]; other site 1085623004935 L21 binding site [polypeptide binding]; other site 1085623004936 L13 binding site [polypeptide binding]; other site 1085623004937 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1085623004938 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1085623004939 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 1085623004940 dimer interface [polypeptide binding]; other site 1085623004941 motif 1; other site 1085623004942 active site 1085623004943 motif 2; other site 1085623004944 motif 3; other site 1085623004945 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1085623004946 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 1085623004947 putative tRNA-binding site [nucleotide binding]; other site 1085623004948 B3/4 domain; Region: B3_4; pfam03483 1085623004949 tRNA synthetase B5 domain; Region: B5; smart00874 1085623004950 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 1085623004951 dimer interface [polypeptide binding]; other site 1085623004952 motif 1; other site 1085623004953 motif 3; other site 1085623004954 motif 2; other site 1085623004955 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1085623004956 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 1085623004957 IHF dimer interface [polypeptide binding]; other site 1085623004958 IHF - DNA interface [nucleotide binding]; other site 1085623004959 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1085623004960 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 1085623004961 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 1085623004962 active site 1085623004963 beta-hexosaminidase; Provisional; Region: PRK05337 1085623004964 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1085623004965 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 1085623004966 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 1085623004967 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 1085623004968 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 1085623004969 transcription-repair coupling factor; Provisional; Region: PRK10689 1085623004970 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1085623004971 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 1085623004972 ATP binding site [chemical binding]; other site 1085623004973 putative Mg++ binding site [ion binding]; other site 1085623004974 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 1085623004975 nucleotide binding region [chemical binding]; other site 1085623004976 ATP-binding site [chemical binding]; other site 1085623004977 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1085623004978 PilZ domain; Region: PilZ; pfam07238 1085623004979 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1085623004980 FtsX-like permease family; Region: FtsX; pfam02687 1085623004981 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1085623004982 active site 1085623004983 Predicted membrane protein [Function unknown]; Region: COG3235 1085623004984 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1085623004985 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1085623004986 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 1085623004987 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1085623004988 catalytic residue [active] 1085623004989 Fe-S metabolism associated domain; Region: SufE; cl00951 1085623004990 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1085623004991 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1085623004992 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623004993 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623004994 metal binding site [ion binding]; metal-binding site 1085623004995 active site 1085623004996 I-site; other site 1085623004997 HDOD domain; Region: HDOD; pfam08668 1085623004998 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1085623004999 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 1085623005000 active site 1085623005001 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 1085623005002 catalytic triad [active] 1085623005003 dimer interface [polypeptide binding]; other site 1085623005004 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 1085623005005 D-galactonate transporter; Region: 2A0114; TIGR00893 1085623005006 putative substrate translocation pore; other site 1085623005007 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 1085623005008 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1085623005009 Di-iron ligands [ion binding]; other site 1085623005010 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1085623005011 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1085623005012 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1085623005013 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1085623005014 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 1085623005015 nucleophilic elbow; other site 1085623005016 catalytic triad; other site 1085623005017 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 1085623005018 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1085623005019 ligand binding site; other site 1085623005020 oligomer interface; other site 1085623005021 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 1085623005022 dimer interface [polypeptide binding]; other site 1085623005023 N-terminal domain interface [polypeptide binding]; other site 1085623005024 sulfate 1 binding site; other site 1085623005025 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1085623005026 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1085623005027 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1085623005028 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1085623005029 active site 1085623005030 catalytic residues [active] 1085623005031 metal binding site [ion binding]; metal-binding site 1085623005032 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1085623005033 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1085623005034 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1085623005035 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 1085623005036 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 1085623005037 carboxyltransferase (CT) interaction site; other site 1085623005038 biotinylation site [posttranslational modification]; other site 1085623005039 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 1085623005040 enoyl-CoA hydratase; Provisional; Region: PRK05995 1085623005041 substrate binding site [chemical binding]; other site 1085623005042 oxyanion hole (OAH) forming residues; other site 1085623005043 trimer interface [polypeptide binding]; other site 1085623005044 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 1085623005045 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1085623005046 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1085623005047 isovaleryl-CoA dehydrogenase; Region: PLN02519 1085623005048 substrate binding site [chemical binding]; other site 1085623005049 FAD binding site [chemical binding]; other site 1085623005050 catalytic base [active] 1085623005051 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1085623005052 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1085623005053 DNA binding residues [nucleotide binding] 1085623005054 putative dimer interface [polypeptide binding]; other site 1085623005055 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1085623005056 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 1085623005057 dimer interface [polypeptide binding]; other site 1085623005058 active site 1085623005059 Protein of unknown function (DUF342); Region: DUF342; pfam03961 1085623005060 exonuclease I; Provisional; Region: sbcB; PRK11779 1085623005061 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1085623005062 active site 1085623005063 catalytic site [active] 1085623005064 substrate binding site [chemical binding]; other site 1085623005065 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1085623005066 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 1085623005067 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 1085623005068 ATP binding site [chemical binding]; other site 1085623005069 putative Mg++ binding site [ion binding]; other site 1085623005070 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 1085623005071 nucleotide binding region [chemical binding]; other site 1085623005072 ATP-binding site [chemical binding]; other site 1085623005073 Helicase associated domain (HA2); Region: HA2; pfam04408 1085623005074 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1085623005075 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1085623005076 PilZ domain; Region: PilZ; pfam07238 1085623005077 PUA domain; Region: PUA; cl00607 1085623005078 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 1085623005079 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1085623005080 putative RNA binding site [nucleotide binding]; other site 1085623005081 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 1085623005082 S-adenosylmethionine binding site [chemical binding]; other site 1085623005083 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1085623005084 RNA/DNA hybrid binding site [nucleotide binding]; other site 1085623005085 active site 1085623005086 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1085623005087 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 1085623005088 active site 1085623005089 catalytic site [active] 1085623005090 substrate binding site [chemical binding]; other site 1085623005091 TIGR03503 family protein; Region: TIGR03503 1085623005092 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1085623005093 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1085623005094 Walker A/P-loop; other site 1085623005095 ATP binding site [chemical binding]; other site 1085623005096 Q-loop/lid; other site 1085623005097 ABC transporter signature motif; other site 1085623005098 Walker B; other site 1085623005099 D-loop; other site 1085623005100 H-loop/switch region; other site 1085623005101 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 1085623005102 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1085623005103 FtsX-like permease family; Region: FtsX; pfam02687 1085623005104 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1085623005105 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1085623005106 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1085623005107 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1085623005108 succinylarginine dihydrolase; Provisional; Region: PRK13281 1085623005109 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1085623005110 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 1085623005111 active site 1085623005112 interdomain interaction site; other site 1085623005113 putative metal-binding site [ion binding]; other site 1085623005114 nucleotide binding site [chemical binding]; other site 1085623005115 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 1085623005116 domain I; other site 1085623005117 DNA binding groove [nucleotide binding] 1085623005118 phosphate binding site [ion binding]; other site 1085623005119 domain II; other site 1085623005120 domain III; other site 1085623005121 nucleotide binding site [chemical binding]; other site 1085623005122 catalytic site [active] 1085623005123 domain IV; other site 1085623005124 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1085623005125 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1085623005126 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1085623005127 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1085623005128 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 1085623005129 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1085623005130 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 1085623005131 homodimer interface [polypeptide binding]; other site 1085623005132 oligonucleotide binding site [chemical binding]; other site 1085623005133 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1085623005134 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 1085623005135 RNA binding surface [nucleotide binding]; other site 1085623005136 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1085623005137 active site 1085623005138 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1085623005139 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 1085623005140 active site 1085623005141 motif I; other site 1085623005142 motif II; other site 1085623005143 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 1085623005144 active site 1085623005145 dimer interface [polypeptide binding]; other site 1085623005146 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 1085623005147 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1085623005148 putative phosphate acyltransferase; Provisional; Region: PRK05331 1085623005149 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1085623005150 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 1085623005151 dimer interface [polypeptide binding]; other site 1085623005152 active site 1085623005153 CoA binding pocket [chemical binding]; other site 1085623005154 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1085623005155 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1085623005156 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1085623005157 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1085623005158 NAD(P) binding site [chemical binding]; other site 1085623005159 homotetramer interface [polypeptide binding]; other site 1085623005160 homodimer interface [polypeptide binding]; other site 1085623005161 active site 1085623005162 acyl carrier protein; Provisional; Region: acpP; PRK00982 1085623005163 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1085623005164 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 1085623005165 dimer interface [polypeptide binding]; other site 1085623005166 active site 1085623005167 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 1085623005168 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1085623005169 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1085623005170 catalytic residue [active] 1085623005171 YceG-like family; Region: YceG; pfam02618 1085623005172 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1085623005173 dimerization interface [polypeptide binding]; other site 1085623005174 thymidylate kinase; Validated; Region: tmk; PRK00698 1085623005175 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 1085623005176 TMP-binding site; other site 1085623005177 ATP-binding site [chemical binding]; other site 1085623005178 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 1085623005179 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1085623005180 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1085623005181 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1085623005182 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1085623005183 active site 1085623005184 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 1085623005185 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxase_2; pfam12766 1085623005186 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 1085623005187 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1085623005188 Zn2+ binding site [ion binding]; other site 1085623005189 Mg2+ binding site [ion binding]; other site 1085623005190 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1085623005191 5'-nucleotidase; Provisional; Region: PRK03826 1085623005192 aminotransferase AlaT; Validated; Region: PRK09265 1085623005193 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 1085623005194 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1085623005195 homodimer interface [polypeptide binding]; other site 1085623005196 catalytic residue [active] 1085623005197 PPPDE putative peptidase domain; Region: DUF862; pfam05903 1085623005198 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 1085623005199 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 1085623005200 active site 1085623005201 homodimer interface [polypeptide binding]; other site 1085623005202 catalytic site [active] 1085623005203 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 1085623005204 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 1085623005205 active site 1085623005206 motif I; other site 1085623005207 motif II; other site 1085623005208 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1085623005209 active site 1085623005210 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1085623005211 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 1085623005212 S-adenosylmethionine binding site [chemical binding]; other site 1085623005213 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 1085623005214 S-adenosylmethionine binding site [chemical binding]; other site 1085623005215 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1085623005216 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623005217 active site 1085623005218 phosphorylation site [posttranslational modification] 1085623005219 intermolecular recognition site; other site 1085623005220 dimerization interface [polypeptide binding]; other site 1085623005221 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 1085623005222 DNA binding residues [nucleotide binding] 1085623005223 dimerization interface [polypeptide binding]; other site 1085623005224 adenosine deaminase; Provisional; Region: PRK09358 1085623005225 active site 1085623005226 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1085623005227 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1085623005228 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1085623005229 active site 1085623005230 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1085623005231 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1085623005232 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1085623005233 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1085623005234 active site 1085623005235 substrate binding site [chemical binding]; other site 1085623005236 cosubstrate binding site; other site 1085623005237 catalytic site [active] 1085623005238 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1085623005239 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 1085623005240 dimerization interface [polypeptide binding]; other site 1085623005241 putative ATP binding site [chemical binding]; other site 1085623005242 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 1085623005243 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1085623005244 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 1085623005245 Walker A motif; other site 1085623005246 ATP binding site [chemical binding]; other site 1085623005247 Walker B motif; other site 1085623005248 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 1085623005249 arginine finger; other site 1085623005250 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 1085623005251 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1085623005252 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1085623005253 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 1085623005254 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1085623005255 catalytic residues [active] 1085623005256 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1085623005257 Peptidase family M48; Region: Peptidase_M48; cl12018 1085623005258 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 1085623005259 binding surface 1085623005260 TPR motif; other site 1085623005261 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1085623005262 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1085623005263 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1085623005264 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 1085623005265 catalytic triad [active] 1085623005266 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1085623005267 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 1085623005268 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1085623005269 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1085623005270 dimer interface [polypeptide binding]; other site 1085623005271 active site 1085623005272 catalytic residue [active] 1085623005273 lipoprotein; Provisional; Region: PRK11679 1085623005274 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 1085623005275 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1085623005276 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1085623005277 ATP binding site [chemical binding]; other site 1085623005278 active site 1085623005279 substrate binding site [chemical binding]; other site 1085623005280 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 1085623005281 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 1085623005282 dimerization domain [polypeptide binding]; other site 1085623005283 dimer interface [polypeptide binding]; other site 1085623005284 catalytic residues [active] 1085623005285 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1085623005286 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 1085623005287 catalytic loop [active] 1085623005288 iron binding site [ion binding]; other site 1085623005289 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1085623005290 dimer interface [polypeptide binding]; other site 1085623005291 putative radical transfer pathway; other site 1085623005292 diiron center [ion binding]; other site 1085623005293 tyrosyl radical; other site 1085623005294 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 1085623005295 ATP cone domain; Region: ATP-cone; pfam03477 1085623005296 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1085623005297 active site 1085623005298 dimer interface [polypeptide binding]; other site 1085623005299 catalytic residues [active] 1085623005300 effector binding site; other site 1085623005301 R2 peptide binding site; other site 1085623005302 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1085623005303 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 1085623005304 S-adenosylmethionine binding site [chemical binding]; other site 1085623005305 DNA gyrase subunit A; Validated; Region: PRK05560 1085623005306 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 1085623005307 CAP-like domain; other site 1085623005308 active site 1085623005309 primary dimer interface [polypeptide binding]; other site 1085623005310 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1085623005311 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1085623005312 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1085623005313 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1085623005314 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1085623005315 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1085623005316 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 1085623005317 homodimer interface [polypeptide binding]; other site 1085623005318 substrate-cofactor binding pocket; other site 1085623005319 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1085623005320 catalytic residue [active] 1085623005321 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 1085623005322 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 1085623005323 hinge; other site 1085623005324 active site 1085623005325 cytidylate kinase; Provisional; Region: cmk; PRK00023 1085623005326 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 1085623005327 CMP-binding site; other site 1085623005328 The sites determining sugar specificity; other site 1085623005329 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1085623005330 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 1085623005331 RNA binding site [nucleotide binding]; other site 1085623005332 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 1085623005333 RNA binding site [nucleotide binding]; other site 1085623005334 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 1085623005335 RNA binding site [nucleotide binding]; other site 1085623005336 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 1085623005337 RNA binding site [nucleotide binding]; other site 1085623005338 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 1085623005339 RNA binding site [nucleotide binding]; other site 1085623005340 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 1085623005341 RNA binding site [nucleotide binding]; other site 1085623005342 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 1085623005343 IHF dimer interface [polypeptide binding]; other site 1085623005344 IHF - DNA interface [nucleotide binding]; other site 1085623005345 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 1085623005346 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1085623005347 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 1085623005348 binding surface 1085623005349 TPR motif; other site 1085623005350 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 1085623005351 binding surface 1085623005352 TPR motif; other site 1085623005353 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 1085623005354 binding surface 1085623005355 TPR motif; other site 1085623005356 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 1085623005357 active site 1085623005358 dimer interface [polypeptide binding]; other site 1085623005359 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1085623005360 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1085623005361 hexamer interface [polypeptide binding]; other site 1085623005362 ligand binding site [chemical binding]; other site 1085623005363 putative active site [active] 1085623005364 NAD(P) binding site [chemical binding]; other site 1085623005365 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1085623005366 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 1085623005367 putative DNA binding site [nucleotide binding]; other site 1085623005368 putative Zn2+ binding site [ion binding]; other site 1085623005369 AsnC family; Region: AsnC_trans_reg; pfam01037 1085623005370 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1085623005371 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1085623005372 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1085623005373 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1085623005374 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1085623005375 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1085623005376 recombination factor protein RarA; Reviewed; Region: PRK13342 1085623005377 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 1085623005378 Walker A motif; other site 1085623005379 ATP binding site [chemical binding]; other site 1085623005380 Walker B motif; other site 1085623005381 arginine finger; other site 1085623005382 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1085623005383 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 1085623005384 seryl-tRNA synthetase; Provisional; Region: PRK05431 1085623005385 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1085623005386 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 1085623005387 dimer interface [polypeptide binding]; other site 1085623005388 active site 1085623005389 motif 1; other site 1085623005390 motif 2; other site 1085623005391 motif 3; other site 1085623005392 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 1085623005393 DsrC like protein; Region: DsrC; pfam04358 1085623005394 DsrH like protein; Region: DsrH; cl17347 1085623005395 DsrE/DsrF-like family; Region: DrsE; cl00672 1085623005396 DsrE/DsrF-like family; Region: DrsE; cl00672 1085623005397 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1085623005398 YccA-like proteins; Region: YccA_like; cd10433 1085623005399 response regulator; Provisional; Region: PRK09483 1085623005400 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623005401 active site 1085623005402 phosphorylation site [posttranslational modification] 1085623005403 intermolecular recognition site; other site 1085623005404 dimerization interface [polypeptide binding]; other site 1085623005405 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 1085623005406 DNA binding residues [nucleotide binding] 1085623005407 dimerization interface [polypeptide binding]; other site 1085623005408 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1085623005409 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1085623005410 GIY-YIG motif/motif A; other site 1085623005411 active site 1085623005412 catalytic site [active] 1085623005413 putative DNA binding site [nucleotide binding]; other site 1085623005414 metal binding site [ion binding]; metal-binding site 1085623005415 UvrB/uvrC motif; Region: UVR; pfam02151 1085623005416 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1085623005417 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1085623005418 integrase; Provisional; Region: PRK09692 1085623005419 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 1085623005420 active site 1085623005421 Int/Topo IB signature motif; other site 1085623005422 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 1085623005423 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1085623005424 SPFH domain / Band 7 family; Region: Band_7; pfam01145 1085623005425 dUTPase; Region: dUTPase_2; pfam08761 1085623005426 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 1085623005427 active site 1085623005428 homodimer interface [polypeptide binding]; other site 1085623005429 metal binding site [ion binding]; metal-binding site 1085623005430 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1085623005431 Thymidylate synthase complementing protein; Region: Thy1; pfam02511 1085623005432 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 1085623005433 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 1085623005434 active site residue [active] 1085623005435 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 1085623005436 active site residue [active] 1085623005437 LysE type translocator; Region: LysE; cl00565 1085623005438 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 1085623005439 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 1085623005440 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 1085623005441 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 1085623005442 hypothetical protein; Provisional; Region: PRK10279 1085623005443 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 1085623005444 nucleophile elbow; other site 1085623005445 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1085623005446 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1085623005447 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 1085623005448 Ligand Binding Site [chemical binding]; other site 1085623005449 universal stress protein UspE; Provisional; Region: PRK11175 1085623005450 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 1085623005451 Ligand Binding Site [chemical binding]; other site 1085623005452 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 1085623005453 Ligand Binding Site [chemical binding]; other site 1085623005454 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1085623005455 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 1085623005456 ligand binding site [chemical binding]; other site 1085623005457 flexible hinge region; other site 1085623005458 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 1085623005459 putative switch regulator; other site 1085623005460 non-specific DNA interactions [nucleotide binding]; other site 1085623005461 DNA binding site [nucleotide binding] 1085623005462 sequence specific DNA binding site [nucleotide binding]; other site 1085623005463 putative cAMP binding site [chemical binding]; other site 1085623005464 Family description; Region: DsbD_2; pfam13386 1085623005465 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 1085623005466 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 1085623005467 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1085623005468 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 1085623005469 metal-binding site [ion binding] 1085623005470 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1085623005471 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1085623005472 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 1085623005473 FixH; Region: FixH; pfam05751 1085623005474 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1085623005475 Cytochrome c; Region: Cytochrom_C; pfam00034 1085623005476 Cytochrome c; Region: Cytochrom_C; pfam00034 1085623005477 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 1085623005478 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1085623005479 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1085623005480 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 1085623005481 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1085623005482 Low-spin heme binding site [chemical binding]; other site 1085623005483 Putative water exit pathway; other site 1085623005484 Binuclear center (active site) [active] 1085623005485 Putative proton exit pathway; other site 1085623005486 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1085623005487 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1085623005488 heme binding site [chemical binding]; other site 1085623005489 ferroxidase pore; other site 1085623005490 ferroxidase diiron center [ion binding]; other site 1085623005491 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1085623005492 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1085623005493 heme binding site [chemical binding]; other site 1085623005494 ferroxidase pore; other site 1085623005495 ferroxidase diiron center [ion binding]; other site 1085623005496 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1085623005497 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1085623005498 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 1085623005499 TrkA-N domain; Region: TrkA_N; pfam02254 1085623005500 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1085623005501 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1085623005502 PAS domain; Region: PAS_9; pfam13426 1085623005503 PAS domain; Region: PAS_9; pfam13426 1085623005504 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623005505 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623005506 metal binding site [ion binding]; metal-binding site 1085623005507 active site 1085623005508 I-site; other site 1085623005509 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 1085623005510 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 1085623005511 CheB methylesterase; Region: CheB_methylest; pfam01339 1085623005512 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1085623005513 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1085623005514 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1085623005515 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 1085623005516 PAS domain; Region: PAS_10; pfam13596 1085623005517 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 1085623005518 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1085623005519 G1 box; other site 1085623005520 GTP/Mg2+ binding site [chemical binding]; other site 1085623005521 G2 box; other site 1085623005522 Switch I region; other site 1085623005523 G3 box; other site 1085623005524 Switch II region; other site 1085623005525 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 1085623005526 putative transporter; Provisional; Region: PRK11660 1085623005527 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1085623005528 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1085623005529 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 1085623005530 6-phosphofructokinase; Provisional; Region: PRK03202 1085623005531 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1085623005532 active site 1085623005533 ADP/pyrophosphate binding site [chemical binding]; other site 1085623005534 dimerization interface [polypeptide binding]; other site 1085623005535 allosteric effector site; other site 1085623005536 fructose-1,6-bisphosphate binding site; other site 1085623005537 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 1085623005538 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 1085623005539 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 1085623005540 HDOD domain; Region: HDOD; pfam08668 1085623005541 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 1085623005542 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1085623005543 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 1085623005544 Beta-lactamase; Region: Beta-lactamase; pfam00144 1085623005545 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1085623005546 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1085623005547 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 1085623005548 putative active site [active] 1085623005549 putative FMN binding site [chemical binding]; other site 1085623005550 putative substrate binding site [chemical binding]; other site 1085623005551 putative catalytic residue [active] 1085623005552 Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]; Region: GrxC; COG0695 1085623005553 Domain of unknown function (DUF305); Region: DUF305; cl17794 1085623005554 Carbohydrate-selective porin, OprB family; Region: OprB; cl17816 1085623005555 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1085623005556 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1085623005557 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2739; cl17893 1085623005558 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 1085623005559 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 1085623005560 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 1085623005561 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 1085623005562 DNA photolyase; Region: DNA_photolyase; pfam00875 1085623005563 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 1085623005564 DNA photolyase; Region: DNA_photolyase; pfam00875 1085623005565 DNA photolyase; Region: DNA_photolyase; pfam00875 1085623005566 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 1085623005567 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 1085623005568 active site 1 [active] 1085623005569 dimer interface [polypeptide binding]; other site 1085623005570 active site 2 [active] 1085623005571 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 1085623005572 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1085623005573 ABC transporter ATPase component; Reviewed; Region: PRK11147 1085623005574 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1085623005575 ABC transporter; Region: ABC_tran_2; pfam12848 1085623005576 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1085623005577 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 1085623005578 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1085623005579 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1085623005580 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 1085623005581 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1085623005582 putative RNA binding site [nucleotide binding]; other site 1085623005583 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 1085623005584 S-adenosylmethionine binding site [chemical binding]; other site 1085623005585 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 1085623005586 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1085623005587 active site 1085623005588 catalytic residues [active] 1085623005589 FMN binding site [chemical binding]; other site 1085623005590 quinone interaction residues [chemical binding]; other site 1085623005591 substrate binding site [chemical binding]; other site 1085623005592 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1085623005593 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 1085623005594 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1085623005595 Ycf48-like protein; Provisional; Region: PRK13684 1085623005596 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1085623005597 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1085623005598 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 1085623005599 aminopeptidase N; Provisional; Region: pepN; PRK14015 1085623005600 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1085623005601 Zn binding site [ion binding]; other site 1085623005602 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1085623005603 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1085623005604 Na2 binding site [ion binding]; other site 1085623005605 putative substrate binding site 1 [chemical binding]; other site 1085623005606 Na binding site 1 [ion binding]; other site 1085623005607 putative substrate binding site 2 [chemical binding]; other site 1085623005608 carboxy-terminal protease; Provisional; Region: PRK11186 1085623005609 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 1085623005610 protein binding site [polypeptide binding]; other site 1085623005611 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1085623005612 Catalytic dyad [active] 1085623005613 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1085623005614 ProP expression regulator; Provisional; Region: PRK04950 1085623005615 ProQ/FINO family; Region: ProQ; pfam04352 1085623005616 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1085623005617 GAF domain; Region: GAF_2; pfam13185 1085623005618 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 1085623005619 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 1085623005620 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1085623005621 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 1085623005622 trimer interface [polypeptide binding]; other site 1085623005623 putative metal binding site [ion binding]; other site 1085623005624 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1085623005625 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 1085623005626 active site 1085623005627 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 1085623005628 catalytic triad [active] 1085623005629 dimer interface [polypeptide binding]; other site 1085623005630 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1085623005631 active site 1085623005632 ATP binding site [chemical binding]; other site 1085623005633 substrate binding site [chemical binding]; other site 1085623005634 activation loop (A-loop); other site 1085623005635 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1085623005636 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 1085623005637 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 1085623005638 E3 interaction surface; other site 1085623005639 lipoyl attachment site [posttranslational modification]; other site 1085623005640 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 1085623005641 E3 interaction surface; other site 1085623005642 lipoyl attachment site [posttranslational modification]; other site 1085623005643 e3 binding domain; Region: E3_binding; pfam02817 1085623005644 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1085623005645 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 1085623005646 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 1085623005647 alpha subunit interface [polypeptide binding]; other site 1085623005648 TPP binding site [chemical binding]; other site 1085623005649 heterodimer interface [polypeptide binding]; other site 1085623005650 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1085623005651 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 1085623005652 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 1085623005653 tetramer interface [polypeptide binding]; other site 1085623005654 TPP-binding site [chemical binding]; other site 1085623005655 heterodimer interface [polypeptide binding]; other site 1085623005656 phosphorylation loop region [posttranslational modification] 1085623005657 multidrug efflux protein; Reviewed; Region: PRK01766 1085623005658 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1085623005659 cation binding site [ion binding]; other site 1085623005660 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1085623005661 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 1085623005662 RNA binding surface [nucleotide binding]; other site 1085623005663 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 1085623005664 probable active site [active] 1085623005665 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1085623005666 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1085623005667 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 1085623005668 Walker A motif; other site 1085623005669 ATP binding site [chemical binding]; other site 1085623005670 Walker B motif; other site 1085623005671 arginine finger; other site 1085623005672 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1085623005673 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 1085623005674 dimer interface [polypeptide binding]; other site 1085623005675 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1085623005676 catalytic residue [active] 1085623005677 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1085623005678 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1085623005679 enoyl-CoA hydratase; Provisional; Region: PRK06688 1085623005680 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 1085623005681 substrate binding site [chemical binding]; other site 1085623005682 oxyanion hole (OAH) forming residues; other site 1085623005683 trimer interface [polypeptide binding]; other site 1085623005684 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 1085623005685 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1085623005686 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 1085623005687 S-adenosylmethionine binding site [chemical binding]; other site 1085623005688 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1085623005689 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1085623005690 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 1085623005691 catalytic residues [active] 1085623005692 dimer interface [polypeptide binding]; other site 1085623005693 hypothetical protein; Provisional; Region: PRK05939 1085623005694 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 1085623005695 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1085623005696 catalytic residue [active] 1085623005697 NRDE protein; Region: NRDE; pfam05742 1085623005698 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1085623005699 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 1085623005700 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1085623005701 homodimer interface [polypeptide binding]; other site 1085623005702 catalytic residue [active] 1085623005703 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 1085623005704 short chain dehydrogenase; Provisional; Region: PRK07035 1085623005705 classical (c) SDRs; Region: SDR_c; cd05233 1085623005706 NAD(P) binding site [chemical binding]; other site 1085623005707 active site 1085623005708 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1085623005709 classical (c) SDRs; Region: SDR_c; cd05233 1085623005710 NAD(P) binding site [chemical binding]; other site 1085623005711 active site 1085623005712 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1085623005713 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1085623005714 NAD(P) binding site [chemical binding]; other site 1085623005715 substrate binding site [chemical binding]; other site 1085623005716 dimer interface [polypeptide binding]; other site 1085623005717 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1085623005718 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1085623005719 active site 1085623005720 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1085623005721 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1085623005722 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 1085623005723 N-terminal plug; other site 1085623005724 ligand-binding site [chemical binding]; other site 1085623005725 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1085623005726 Protein export membrane protein; Region: SecD_SecF; cl14618 1085623005727 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1085623005728 HlyD family secretion protein; Region: HlyD_3; pfam13437 1085623005729 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 1085623005730 MoaE homodimer interface [polypeptide binding]; other site 1085623005731 MoaD interaction [polypeptide binding]; other site 1085623005732 active site residues [active] 1085623005733 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 1085623005734 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 1085623005735 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1085623005736 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 1085623005737 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1085623005738 Ligand binding site [chemical binding]; other site 1085623005739 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1085623005740 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1085623005741 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1085623005742 acyl-CoA esterase; Provisional; Region: PRK10673 1085623005743 PGAP1-like protein; Region: PGAP1; pfam07819 1085623005744 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 1085623005745 flavodoxin FldA; Validated; Region: PRK09267 1085623005746 Protein of unknown function, DUF547; Region: DUF547; pfam04784 1085623005747 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 1085623005748 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1085623005749 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1085623005750 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1085623005751 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 1085623005752 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1085623005753 active site 1085623005754 Zn binding site [ion binding]; other site 1085623005755 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 1085623005756 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1085623005757 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 1085623005758 dimerization interface [polypeptide binding]; other site 1085623005759 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1085623005760 dimer interface [polypeptide binding]; other site 1085623005761 putative CheW interface [polypeptide binding]; other site 1085623005762 ferric uptake regulator; Provisional; Region: fur; PRK09462 1085623005763 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1085623005764 metal binding site 2 [ion binding]; metal-binding site 1085623005765 putative DNA binding helix; other site 1085623005766 metal binding site 1 [ion binding]; metal-binding site 1085623005767 dimer interface [polypeptide binding]; other site 1085623005768 structural Zn2+ binding site [ion binding]; other site 1085623005769 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1085623005770 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 1085623005771 homodimer interface [polypeptide binding]; other site 1085623005772 substrate-cofactor binding pocket; other site 1085623005773 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1085623005774 catalytic residue [active] 1085623005775 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 1085623005776 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1085623005777 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 1085623005778 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1085623005779 putative active site [active] 1085623005780 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1085623005781 S1 domain; Region: S1_2; pfam13509 1085623005782 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 1085623005783 RNA binding site [nucleotide binding]; other site 1085623005784 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 1085623005785 RNA binding site [nucleotide binding]; other site 1085623005786 OsmC-like protein; Region: OsmC; cl00767 1085623005787 RmuC family; Region: RmuC; pfam02646 1085623005788 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1085623005789 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1085623005790 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1085623005791 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1085623005792 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1085623005793 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 1085623005794 putative active site [active] 1085623005795 putative CoA binding site [chemical binding]; other site 1085623005796 nudix motif; other site 1085623005797 metal binding site [ion binding]; metal-binding site 1085623005798 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1085623005799 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1085623005800 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1085623005801 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1085623005802 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1085623005803 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1085623005804 substrate binding site [chemical binding]; other site 1085623005805 dimerization interface [polypeptide binding]; other site 1085623005806 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1085623005807 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 1085623005808 ATP binding site [chemical binding]; other site 1085623005809 Mg2+ binding site [ion binding]; other site 1085623005810 G-X-G motif; other site 1085623005811 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1085623005812 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1085623005813 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1085623005814 putative dimerization interface [polypeptide binding]; other site 1085623005815 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1085623005816 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1085623005817 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1085623005818 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 1085623005819 ATP binding site [chemical binding]; other site 1085623005820 Mg++ binding site [ion binding]; other site 1085623005821 motif III; other site 1085623005822 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 1085623005823 nucleotide binding region [chemical binding]; other site 1085623005824 ATP-binding site [chemical binding]; other site 1085623005825 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1085623005826 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1085623005827 ATP-grasp domain; Region: ATP-grasp; pfam02222 1085623005828 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 1085623005829 EF-hand domain pair; Region: EF_hand_5; pfam13499 1085623005830 Ca2+ binding site [ion binding]; other site 1085623005831 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 1085623005832 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1085623005833 active site residue [active] 1085623005834 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1085623005835 EamA-like transporter family; Region: EamA; pfam00892 1085623005836 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_cladeD; cd03379 1085623005837 active site clefts [active] 1085623005838 zinc binding site [ion binding]; other site 1085623005839 dimer interface [polypeptide binding]; other site 1085623005840 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 1085623005841 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 1085623005842 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 1085623005843 Protein of unknown function (DUF3187); Region: DUF3187; pfam11383 1085623005844 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 1085623005845 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1085623005846 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 1085623005847 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1085623005848 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 1085623005849 FOG: CBS domain [General function prediction only]; Region: COG0517 1085623005850 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 1085623005851 hypothetical protein; Provisional; Region: PRK08609 1085623005852 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 1085623005853 active site 1085623005854 primer binding site [nucleotide binding]; other site 1085623005855 NTP binding site [chemical binding]; other site 1085623005856 metal binding triad [ion binding]; metal-binding site 1085623005857 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 1085623005858 active site 1085623005859 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1085623005860 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1085623005861 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 1085623005862 protein binding site [polypeptide binding]; other site 1085623005863 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 1085623005864 protein binding site [polypeptide binding]; other site 1085623005865 FOG: CBS domain [General function prediction only]; Region: COG0517 1085623005866 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 1085623005867 Protein of unknown function (DUF962); Region: DUF962; cl01879 1085623005868 Flagellar protein YcgR; Region: YcgR_2; pfam12945 1085623005869 PilZ domain; Region: PilZ; pfam07238 1085623005870 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 1085623005871 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 1085623005872 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 1085623005873 protein binding site [polypeptide binding]; other site 1085623005874 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1085623005875 Peptidase family M23; Region: Peptidase_M23; pfam01551 1085623005876 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 1085623005877 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1085623005878 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 1085623005879 Protein of unknown function (DUF1414); Region: DUF1414; cl01175 1085623005880 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 1085623005881 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1085623005882 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 1085623005883 substrate binding pocket [chemical binding]; other site 1085623005884 membrane-bound complex binding site; other site 1085623005885 hinge residues; other site 1085623005886 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 1085623005887 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 1085623005888 active site 1085623005889 motif I; other site 1085623005890 motif II; other site 1085623005891 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1085623005892 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1085623005893 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1085623005894 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1085623005895 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1085623005896 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 1085623005897 substrate binding site [chemical binding]; other site 1085623005898 oxyanion hole (OAH) forming residues; other site 1085623005899 trimer interface [polypeptide binding]; other site 1085623005900 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1085623005901 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1085623005902 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 1085623005903 substrate binding pocket [chemical binding]; other site 1085623005904 FAD binding site [chemical binding]; other site 1085623005905 catalytic base [active] 1085623005906 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1085623005907 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1085623005908 tetrameric interface [polypeptide binding]; other site 1085623005909 NAD binding site [chemical binding]; other site 1085623005910 catalytic residues [active] 1085623005911 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1085623005912 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623005913 active site 1085623005914 phosphorylation site [posttranslational modification] 1085623005915 intermolecular recognition site; other site 1085623005916 dimerization interface [polypeptide binding]; other site 1085623005917 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 1085623005918 catalytic residues [active] 1085623005919 dimer interface [polypeptide binding]; other site 1085623005920 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1085623005921 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 1085623005922 S-adenosylmethionine binding site [chemical binding]; other site 1085623005923 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1085623005924 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1085623005925 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1085623005926 putative inner membrane peptidase; Provisional; Region: PRK11778 1085623005927 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1085623005928 tandem repeat interface [polypeptide binding]; other site 1085623005929 oligomer interface [polypeptide binding]; other site 1085623005930 active site residues [active] 1085623005931 Penicillin amidase; Region: Penicil_amidase; pfam01804 1085623005932 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 1085623005933 Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_CA; cd01936 1085623005934 active site 1085623005935 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 1085623005936 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 1085623005937 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 1085623005938 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 1085623005939 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1085623005940 NAD(P) binding site [chemical binding]; other site 1085623005941 active site 1085623005942 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1085623005943 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1085623005944 active site 1085623005945 HIGH motif; other site 1085623005946 nucleotide binding site [chemical binding]; other site 1085623005947 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1085623005948 KMSKS motif; other site 1085623005949 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1085623005950 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1085623005951 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1085623005952 DNA binding site [nucleotide binding] 1085623005953 domain linker motif; other site 1085623005954 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 1085623005955 putative dimerization interface [polypeptide binding]; other site 1085623005956 putative ligand binding site [chemical binding]; other site 1085623005957 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1085623005958 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 1085623005959 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 1085623005960 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 1085623005961 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1085623005962 putative substrate translocation pore; other site 1085623005963 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 1085623005964 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 1085623005965 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 1085623005966 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1085623005967 CtsZ (cyclic tetrasaccharide-synthesizing enzyme Z) is a bacterial 6-alpha-glucosyltransferase, first identified in Arthrobacter globiformis, that produces cyclic tetrasaccharides together with a closely related enzyme CtsY. CtsZ and CtsY both have a...; Region: GH31_transferase_CtsZ; cd06598 1085623005968 putative active site [active] 1085623005969 putative catalytic site [active] 1085623005970 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 1085623005971 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1085623005972 active site 1085623005973 catalytic site [active] 1085623005974 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 1085623005975 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1085623005976 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 1085623005977 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 1085623005978 Ligand Binding Site [chemical binding]; other site 1085623005979 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 1085623005980 Ligand Binding Site [chemical binding]; other site 1085623005981 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1085623005982 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1085623005983 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1085623005984 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 1085623005985 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 1085623005986 carbohydrate binding site [chemical binding]; other site 1085623005987 alpha-1,6-glucosidases, pullulanase-type; Region: pullul_strch; TIGR02103 1085623005988 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 1085623005989 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 1085623005990 Ca binding site [ion binding]; other site 1085623005991 active site 1085623005992 catalytic site [active] 1085623005993 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 1085623005994 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 1085623005995 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 1085623005996 X25 domain of Bacillus acidopullulyticus pullulanase and similar proteins; Region: X25_BaPul_like; cd12962 1085623005997 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 1085623005998 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1085623005999 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 1085623006000 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 1085623006001 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1085623006002 CoA binding domain; Region: CoA_binding; pfam02629 1085623006003 CoA-ligase; Region: Ligase_CoA; pfam00549 1085623006004 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1085623006005 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1085623006006 CoA-ligase; Region: Ligase_CoA; pfam00549 1085623006007 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 1085623006008 E3 interaction surface; other site 1085623006009 lipoyl attachment site [posttranslational modification]; other site 1085623006010 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1085623006011 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 1085623006012 E3 interaction surface; other site 1085623006013 lipoyl attachment site [posttranslational modification]; other site 1085623006014 e3 binding domain; Region: E3_binding; pfam02817 1085623006015 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1085623006016 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1085623006017 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 1085623006018 TPP-binding site [chemical binding]; other site 1085623006019 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1085623006020 PYR/PP interface [polypeptide binding]; other site 1085623006021 dimer interface [polypeptide binding]; other site 1085623006022 TPP binding site [chemical binding]; other site 1085623006023 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1085623006024 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1085623006025 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 1085623006026 L-aspartate oxidase; Provisional; Region: PRK06175 1085623006027 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1085623006028 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 1085623006029 SdhC subunit interface [polypeptide binding]; other site 1085623006030 proximal heme binding site [chemical binding]; other site 1085623006031 cardiolipin binding site; other site 1085623006032 Iron-sulfur protein interface; other site 1085623006033 proximal quinone binding site [chemical binding]; other site 1085623006034 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 1085623006035 proximal heme binding site [chemical binding]; other site 1085623006036 SdhD (CybS) interface [polypeptide binding]; other site 1085623006037 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 1085623006038 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1085623006039 dimer interface [polypeptide binding]; other site 1085623006040 active site 1085623006041 citrylCoA binding site [chemical binding]; other site 1085623006042 NADH binding [chemical binding]; other site 1085623006043 cationic pore residues; other site 1085623006044 oxalacetate/citrate binding site [chemical binding]; other site 1085623006045 coenzyme A binding site [chemical binding]; other site 1085623006046 catalytic triad [active] 1085623006047 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 1085623006048 phosphomannomutase CpsG; Provisional; Region: PRK15414 1085623006049 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 1085623006050 active site 1085623006051 substrate binding site [chemical binding]; other site 1085623006052 metal binding site [ion binding]; metal-binding site 1085623006053 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1085623006054 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1085623006055 Substrate binding site; other site 1085623006056 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1085623006057 Pirin-related protein [General function prediction only]; Region: COG1741 1085623006058 Pirin; Region: Pirin; pfam02678 1085623006059 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1085623006060 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1085623006061 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1085623006062 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1085623006063 putative dimer interface [polypeptide binding]; other site 1085623006064 N-terminal domain interface [polypeptide binding]; other site 1085623006065 putative substrate binding pocket (H-site) [chemical binding]; other site 1085623006066 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1085623006067 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 1085623006068 putative ATP binding site [chemical binding]; other site 1085623006069 putative substrate interface [chemical binding]; other site 1085623006070 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1085623006071 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1085623006072 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 1085623006073 dimerization interface [polypeptide binding]; other site 1085623006074 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 1085623006075 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623006076 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623006077 metal binding site [ion binding]; metal-binding site 1085623006078 active site 1085623006079 I-site; other site 1085623006080 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1085623006081 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1085623006082 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 1085623006083 FeS/SAM binding site; other site 1085623006084 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1085623006085 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1085623006086 Ligand binding site; other site 1085623006087 oligomer interface; other site 1085623006088 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1085623006089 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 1085623006090 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1085623006091 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 1085623006092 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1085623006093 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1085623006094 Walker A/P-loop; other site 1085623006095 ATP binding site [chemical binding]; other site 1085623006096 Q-loop/lid; other site 1085623006097 ABC transporter signature motif; other site 1085623006098 Walker B; other site 1085623006099 D-loop; other site 1085623006100 H-loop/switch region; other site 1085623006101 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1085623006102 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 1085623006103 Competence protein; Region: Competence; pfam03772 1085623006104 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1085623006105 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 1085623006106 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1085623006107 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 1085623006108 nucleotide binding pocket [chemical binding]; other site 1085623006109 K-X-D-G motif; other site 1085623006110 catalytic site [active] 1085623006111 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1085623006112 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1085623006113 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 1085623006114 Dimer interface [polypeptide binding]; other site 1085623006115 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 1085623006116 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 1085623006117 FtsZ protein binding site [polypeptide binding]; other site 1085623006118 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1085623006119 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1085623006120 Walker A/P-loop; other site 1085623006121 ATP binding site [chemical binding]; other site 1085623006122 Q-loop/lid; other site 1085623006123 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1085623006124 ABC transporter signature motif; other site 1085623006125 Walker B; other site 1085623006126 D-loop; other site 1085623006127 H-loop/switch region; other site 1085623006128 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1085623006129 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1085623006130 IgA Peptidase M64; Region: Peptidase_M64; pfam09471 1085623006131 lipoprotein NlpI; Provisional; Region: PRK11189 1085623006132 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 1085623006133 binding surface 1085623006134 TPR motif; other site 1085623006135 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 1085623006136 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1085623006137 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1085623006138 RNase E interface [polypeptide binding]; other site 1085623006139 trimer interface [polypeptide binding]; other site 1085623006140 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1085623006141 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1085623006142 RNase E interface [polypeptide binding]; other site 1085623006143 trimer interface [polypeptide binding]; other site 1085623006144 active site 1085623006145 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 1085623006146 putative nucleic acid binding region [nucleotide binding]; other site 1085623006147 G-X-X-G motif; other site 1085623006148 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 1085623006149 RNA binding site [nucleotide binding]; other site 1085623006150 domain interface; other site 1085623006151 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 1085623006152 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1085623006153 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 1085623006154 putative dimerization interface [polypeptide binding]; other site 1085623006155 Peptidase S46; Region: Peptidase_S46; pfam10459 1085623006156 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1085623006157 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1085623006158 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 1085623006159 triosephosphate isomerase; Provisional; Region: PRK14567 1085623006160 substrate binding site [chemical binding]; other site 1085623006161 dimer interface [polypeptide binding]; other site 1085623006162 catalytic triad [active] 1085623006163 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1085623006164 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 1085623006165 active site 1085623006166 substrate binding site [chemical binding]; other site 1085623006167 metal binding site [ion binding]; metal-binding site 1085623006168 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 1085623006169 dihydropteroate synthase; Region: DHPS; TIGR01496 1085623006170 substrate binding pocket [chemical binding]; other site 1085623006171 dimer interface [polypeptide binding]; other site 1085623006172 inhibitor binding site; inhibition site 1085623006173 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 1085623006174 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 1085623006175 Walker A motif; other site 1085623006176 ATP binding site [chemical binding]; other site 1085623006177 Walker B motif; other site 1085623006178 arginine finger; other site 1085623006179 Peptidase family M41; Region: Peptidase_M41; pfam01434 1085623006180 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 1085623006181 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1085623006182 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1085623006183 NAD(P) binding site [chemical binding]; other site 1085623006184 active site 1085623006185 AAA domain; Region: AAA_32; pfam13654 1085623006186 39S mitochondrial ribosomal protein L46; Region: MRP-L46; pfam11788 1085623006187 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 1085623006188 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1085623006189 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1085623006190 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1085623006191 HIGH motif; other site 1085623006192 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1085623006193 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1085623006194 active site 1085623006195 KMSKS motif; other site 1085623006196 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1085623006197 tRNA binding surface [nucleotide binding]; other site 1085623006198 Lipopolysaccharide-assembly; Region: LptE; cl01125 1085623006199 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1085623006200 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1085623006201 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1085623006202 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1085623006203 active site 1085623006204 (T/H)XGH motif; other site 1085623006205 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1085623006206 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1085623006207 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1085623006208 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1085623006209 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1085623006210 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1085623006211 rare lipoprotein A; Provisional; Region: PRK10672 1085623006212 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1085623006213 Sporulation related domain; Region: SPOR; pfam05036 1085623006214 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1085623006215 D-alanyl-D-alanine carboxypeptidase; Provisional; Region: dacD; PRK11397 1085623006216 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1085623006217 hypothetical protein; Provisional; Region: PRK04998 1085623006218 lipoate-protein ligase B; Provisional; Region: PRK14342 1085623006219 lipoyl synthase; Provisional; Region: PRK05481 1085623006220 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 1085623006221 cystathionine gamma-lyase; Validated; Region: PRK07582 1085623006222 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 1085623006223 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1085623006224 catalytic residue [active] 1085623006225 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 1085623006226 active site 1085623006227 homodimer interface [polypeptide binding]; other site 1085623006228 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 1085623006229 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 1085623006230 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 1085623006231 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 1085623006232 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1085623006233 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1085623006234 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1085623006235 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1085623006236 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 1085623006237 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 1085623006238 putative active site [active] 1085623006239 Zn binding site [ion binding]; other site 1085623006240 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1085623006241 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1085623006242 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 1085623006243 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1085623006244 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1085623006245 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1085623006246 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1085623006247 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1085623006248 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1085623006249 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 1085623006250 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1085623006251 active site 1085623006252 catalytic site [active] 1085623006253 glycogen branching enzyme; Provisional; Region: PRK05402 1085623006254 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1085623006255 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1085623006256 active site 1085623006257 catalytic site [active] 1085623006258 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1085623006259 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1085623006260 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1085623006261 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1085623006262 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 1085623006263 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1085623006264 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1085623006265 active site 1085623006266 phosphate binding residues; other site 1085623006267 catalytic residues [active] 1085623006268 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1085623006269 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1085623006270 active site 1085623006271 intersubunit interface [polypeptide binding]; other site 1085623006272 catalytic residue [active] 1085623006273 glucokinase; Provisional; Region: glk; PRK00292 1085623006274 glucokinase, proteobacterial type; Region: glk; TIGR00749 1085623006275 phosphogluconate dehydratase; Validated; Region: PRK09054 1085623006276 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1085623006277 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1085623006278 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 1085623006279 putative active site [active] 1085623006280 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1085623006281 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1085623006282 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1085623006283 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1085623006284 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1085623006285 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 1085623006286 putative active site [active] 1085623006287 pyruvate kinase; Provisional; Region: PRK05826 1085623006288 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 1085623006289 domain interfaces; other site 1085623006290 active site 1085623006291 Uncharacterized conserved protein [Function unknown]; Region: COG3268 1085623006292 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1085623006293 NAD(P) binding site [chemical binding]; other site 1085623006294 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 1085623006295 putative FMN binding site [chemical binding]; other site 1085623006296 protease 4; Provisional; Region: PRK10949 1085623006297 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 1085623006298 tandem repeat interface [polypeptide binding]; other site 1085623006299 oligomer interface [polypeptide binding]; other site 1085623006300 active site residues [active] 1085623006301 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1085623006302 tandem repeat interface [polypeptide binding]; other site 1085623006303 oligomer interface [polypeptide binding]; other site 1085623006304 active site residues [active] 1085623006305 hypothetical protein; Provisional; Region: PRK04860 1085623006306 SprT homologues; Region: SprT; cl01182 1085623006307 Protein of unknown function, DUF412; Region: DUF412; cl01183 1085623006308 thioredoxin reductase; Provisional; Region: PRK10262 1085623006309 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1085623006310 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1085623006311 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1085623006312 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1085623006313 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1085623006314 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1085623006315 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 1085623006316 rRNA binding site [nucleotide binding]; other site 1085623006317 predicted 30S ribosome binding site; other site 1085623006318 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 1085623006319 Clp amino terminal domain; Region: Clp_N; pfam02861 1085623006320 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 1085623006321 Walker A motif; other site 1085623006322 ATP binding site [chemical binding]; other site 1085623006323 Walker B motif; other site 1085623006324 arginine finger; other site 1085623006325 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 1085623006326 Walker A motif; other site 1085623006327 ATP binding site [chemical binding]; other site 1085623006328 Walker B motif; other site 1085623006329 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1085623006330 Uncharacterized conserved protein [Function unknown]; Region: COG2127 1085623006331 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 1085623006332 DNA-binding site [nucleotide binding]; DNA binding site 1085623006333 RNA-binding motif; other site 1085623006334 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1085623006335 pseudouridine synthase; Region: TIGR00093 1085623006336 active site 1085623006337 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1085623006338 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 1085623006339 Ligand Binding Site [chemical binding]; other site 1085623006340 putative lysogenization regulator; Reviewed; Region: PRK00218 1085623006341 adenylosuccinate lyase; Provisional; Region: PRK09285 1085623006342 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1085623006343 tetramer interface [polypeptide binding]; other site 1085623006344 active site 1085623006345 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 1085623006346 cyclase homology domain; Region: CHD; cd07302 1085623006347 nucleotidyl binding site; other site 1085623006348 metal binding site [ion binding]; metal-binding site 1085623006349 dimer interface [polypeptide binding]; other site 1085623006350 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1085623006351 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cl00482 1085623006352 SmpB-tmRNA interface; other site 1085623006353 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 1085623006354 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 1085623006355 SEC-C motif; Region: SEC-C; pfam02810 1085623006356 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1085623006357 Putative serine esterase (DUF676); Region: DUF676; pfam05057 1085623006358 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1085623006359 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1085623006360 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 1085623006361 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1085623006362 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 1085623006363 S-adenosylmethionine binding site [chemical binding]; other site 1085623006364 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1085623006365 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1085623006366 RF-1 domain; Region: RF-1; pfam00472 1085623006367 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1085623006368 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1085623006369 tRNA; other site 1085623006370 putative tRNA binding site [nucleotide binding]; other site 1085623006371 putative NADP binding site [chemical binding]; other site 1085623006372 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1085623006373 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1085623006374 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1085623006375 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1085623006376 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1085623006377 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1085623006378 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1085623006379 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1085623006380 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1085623006381 active site 1085623006382 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1085623006383 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1085623006384 5S rRNA interface [nucleotide binding]; other site 1085623006385 CTC domain interface [polypeptide binding]; other site 1085623006386 L16 interface [polypeptide binding]; other site 1085623006387 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 1085623006388 putative active site [active] 1085623006389 catalytic residue [active] 1085623006390 GTP-binding protein YchF; Reviewed; Region: PRK09601 1085623006391 YchF GTPase; Region: YchF; cd01900 1085623006392 G1 box; other site 1085623006393 GTP/Mg2+ binding site [chemical binding]; other site 1085623006394 Switch I region; other site 1085623006395 G2 box; other site 1085623006396 Switch II region; other site 1085623006397 G3 box; other site 1085623006398 G4 box; other site 1085623006399 G5 box; other site 1085623006400 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 1085623006401 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1085623006402 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1085623006403 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1085623006404 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 1085623006405 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1085623006406 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1085623006407 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 1085623006408 FeS/SAM binding site; other site 1085623006409 TRAM domain; Region: TRAM; pfam01938 1085623006410 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1085623006411 PhoH-like protein; Region: PhoH; pfam02562 1085623006412 metal-binding heat shock protein; Provisional; Region: PRK00016 1085623006413 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1085623006414 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 1085623006415 Transporter associated domain; Region: CorC_HlyC; smart01091 1085623006416 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1085623006417 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1085623006418 putative active site [active] 1085623006419 catalytic triad [active] 1085623006420 putative dimer interface [polypeptide binding]; other site 1085623006421 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1085623006422 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1085623006423 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1085623006424 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 1085623006425 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1085623006426 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1085623006427 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1085623006428 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1085623006429 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1085623006430 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1085623006431 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1085623006432 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1085623006433 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1085623006434 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 1085623006435 IMP binding site; other site 1085623006436 dimer interface [polypeptide binding]; other site 1085623006437 interdomain contacts; other site 1085623006438 partial ornithine binding site; other site 1085623006439 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1085623006440 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1085623006441 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1085623006442 catalytic site [active] 1085623006443 subunit interface [polypeptide binding]; other site 1085623006444 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1085623006445 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1085623006446 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1085623006447 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 1085623006448 Cytochrome C' Region: Cytochrom_C_2; pfam01322 1085623006449 chaperone protein DnaJ; Provisional; Region: PRK10767 1085623006450 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 1085623006451 HSP70 interaction site [polypeptide binding]; other site 1085623006452 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1085623006453 substrate binding site [polypeptide binding]; other site 1085623006454 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1085623006455 Zn binding sites [ion binding]; other site 1085623006456 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1085623006457 dimer interface [polypeptide binding]; other site 1085623006458 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1085623006459 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1085623006460 nucleotide binding site [chemical binding]; other site 1085623006461 GrpE; Region: GrpE; pfam01025 1085623006462 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 1085623006463 dimer interface [polypeptide binding]; other site 1085623006464 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1085623006465 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1085623006466 Na binding site [ion binding]; other site 1085623006467 PAS fold; Region: PAS_7; pfam12860 1085623006468 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1085623006469 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 1085623006470 dimer interface [polypeptide binding]; other site 1085623006471 phosphorylation site [posttranslational modification] 1085623006472 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 1085623006473 ATP binding site [chemical binding]; other site 1085623006474 Mg2+ binding site [ion binding]; other site 1085623006475 G-X-G motif; other site 1085623006476 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1085623006477 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623006478 active site 1085623006479 phosphorylation site [posttranslational modification] 1085623006480 intermolecular recognition site; other site 1085623006481 dimerization interface [polypeptide binding]; other site 1085623006482 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623006483 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623006484 metal binding site [ion binding]; metal-binding site 1085623006485 active site 1085623006486 I-site; other site 1085623006487 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 1085623006488 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1085623006489 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 1085623006490 substrate binding site [chemical binding]; other site 1085623006491 oxyanion hole (OAH) forming residues; other site 1085623006492 trimer interface [polypeptide binding]; other site 1085623006493 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1085623006494 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623006495 active site 1085623006496 phosphorylation site [posttranslational modification] 1085623006497 intermolecular recognition site; other site 1085623006498 dimerization interface [polypeptide binding]; other site 1085623006499 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 1085623006500 DNA binding residues [nucleotide binding] 1085623006501 dimerization interface [polypeptide binding]; other site 1085623006502 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1085623006503 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 1085623006504 N-terminal plug; other site 1085623006505 ligand-binding site [chemical binding]; other site 1085623006506 Citrate transporter; Region: CitMHS; pfam03600 1085623006507 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1085623006508 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1085623006509 homoserine O-acetyltransferase; Provisional; Region: PRK06765 1085623006510 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 1085623006511 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1085623006512 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 1085623006513 NAD(P) binding site [chemical binding]; other site 1085623006514 active site 1085623006515 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 1085623006516 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1085623006517 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1085623006518 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1085623006519 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 1085623006520 putative substrate translocation pore; other site 1085623006521 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 1085623006522 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 1085623006523 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 1085623006524 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 1085623006525 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1085623006526 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 1085623006527 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 1085623006528 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1085623006529 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1085623006530 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 1085623006531 recombination and repair protein; Provisional; Region: PRK10869 1085623006532 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1085623006533 Walker A/P-loop; other site 1085623006534 ATP binding site [chemical binding]; other site 1085623006535 Q-loop/lid; other site 1085623006536 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1085623006537 ABC transporter signature motif; other site 1085623006538 Walker B; other site 1085623006539 D-loop; other site 1085623006540 H-loop/switch region; other site 1085623006541 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1085623006542 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1085623006543 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623006544 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623006545 metal binding site [ion binding]; metal-binding site 1085623006546 active site 1085623006547 I-site; other site 1085623006548 FimV N-terminal domain; Region: FimV_core; TIGR03505 1085623006549 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 1085623006550 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1085623006551 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1085623006552 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 1085623006553 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 1085623006554 ligand binding site [chemical binding]; other site 1085623006555 NAD binding site [chemical binding]; other site 1085623006556 catalytic site [active] 1085623006557 homodimer interface [polypeptide binding]; other site 1085623006558 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1085623006559 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 1085623006560 dimer interface [polypeptide binding]; other site 1085623006561 active site 1085623006562 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1085623006563 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1085623006564 YfcL protein; Region: YfcL; pfam08891 1085623006565 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 1085623006566 Protein of unknown function, DUF462; Region: DUF462; pfam04315 1085623006567 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 1085623006568 active site 1085623006569 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1085623006570 catalytic motif [active] 1085623006571 Catalytic residue [active] 1085623006572 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1085623006573 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 1085623006574 active site 1085623006575 FMN binding site [chemical binding]; other site 1085623006576 2,4-decadienoyl-CoA binding site; other site 1085623006577 catalytic residue [active] 1085623006578 4Fe-4S cluster binding site [ion binding]; other site 1085623006579 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1085623006580 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1085623006581 fatty acid metabolism regulator; Provisional; Region: PRK04984 1085623006582 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1085623006583 DNA-binding site [nucleotide binding]; DNA binding site 1085623006584 FadR C-terminal domain; Region: FadR_C; pfam07840 1085623006585 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1085623006586 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 1085623006587 DNA-binding site [nucleotide binding]; DNA binding site 1085623006588 RNA-binding motif; other site 1085623006589 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 1085623006590 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 1085623006591 hypothetical protein; Provisional; Region: PRK05170 1085623006592 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 1085623006593 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1085623006594 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1085623006595 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 1085623006596 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1085623006597 YcgL domain; Region: YcgL; pfam05166 1085623006598 ribonuclease D; Provisional; Region: PRK10829 1085623006599 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1085623006600 catalytic site [active] 1085623006601 putative active site [active] 1085623006602 putative substrate binding site [chemical binding]; other site 1085623006603 HRDC domain; Region: HRDC; pfam00570 1085623006604 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 1085623006605 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1085623006606 acyl-activating enzyme (AAE) consensus motif; other site 1085623006607 putative AMP binding site [chemical binding]; other site 1085623006608 putative active site [active] 1085623006609 putative CoA binding site [chemical binding]; other site 1085623006610 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1085623006611 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1085623006612 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 1085623006613 Glycoprotease family; Region: Peptidase_M22; pfam00814 1085623006614 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1085623006615 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1085623006616 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1085623006617 ATP binding site [chemical binding]; other site 1085623006618 DEAD_2; Region: DEAD_2; pfam06733 1085623006619 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1085623006620 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1085623006621 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1085623006622 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1085623006623 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1085623006624 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1085623006625 Walker A/P-loop; other site 1085623006626 ATP binding site [chemical binding]; other site 1085623006627 Q-loop/lid; other site 1085623006628 ABC transporter signature motif; other site 1085623006629 Walker B; other site 1085623006630 D-loop; other site 1085623006631 H-loop/switch region; other site 1085623006632 Yip1 domain; Region: Yip1; pfam04893 1085623006633 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 1085623006634 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1085623006635 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 1085623006636 PA/protease or protease-like domain interface [polypeptide binding]; other site 1085623006637 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 1085623006638 Peptidase family M28; Region: Peptidase_M28; pfam04389 1085623006639 metal binding site [ion binding]; metal-binding site 1085623006640 asparagine synthetase B; Provisional; Region: asnB; PRK09431 1085623006641 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 1085623006642 active site 1085623006643 dimer interface [polypeptide binding]; other site 1085623006644 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 1085623006645 Ligand Binding Site [chemical binding]; other site 1085623006646 Molecular Tunnel; other site 1085623006647 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1085623006648 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1085623006649 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 1085623006650 Ligand Binding Site [chemical binding]; other site 1085623006651 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1085623006652 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1085623006653 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1085623006654 dimerization interface [polypeptide binding]; other site 1085623006655 excinuclease ABC subunit B; Provisional; Region: PRK05298 1085623006656 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 1085623006657 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 1085623006658 ATP-binding site [chemical binding]; other site 1085623006659 ATP binding site [chemical binding]; other site 1085623006660 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 1085623006661 nucleotide binding region [chemical binding]; other site 1085623006662 ATP-binding site [chemical binding]; other site 1085623006663 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1085623006664 UvrB/uvrC motif; Region: UVR; pfam02151 1085623006665 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_2; cd13149 1085623006666 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1085623006667 electron transport complex protein RsxA; Provisional; Region: PRK05151 1085623006668 electron transport complex protein RnfB; Provisional; Region: PRK05113 1085623006669 Putative Fe-S cluster; Region: FeS; pfam04060 1085623006670 4Fe-4S binding domain; Region: Fer4; pfam00037 1085623006671 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 1085623006672 SLBB domain; Region: SLBB; pfam10531 1085623006673 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 1085623006674 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 1085623006675 FMN-binding domain; Region: FMN_bind; cl01081 1085623006676 electron transport complex RsxE subunit; Provisional; Region: PRK12405 1085623006677 endonuclease III; Provisional; Region: PRK10702 1085623006678 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1085623006679 minor groove reading motif; other site 1085623006680 helix-hairpin-helix signature motif; other site 1085623006681 substrate binding pocket [chemical binding]; other site 1085623006682 active site 1085623006683 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1085623006684 Predicted integral membrane protein [Function unknown]; Region: COG5616 1085623006685 Cna protein B-type domain; Region: Cna_B; pfam05738 1085623006686 Sporulation related domain; Region: SPOR; pfam05036 1085623006687 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1085623006688 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1085623006689 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1085623006690 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1085623006691 active site 1085623006692 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1085623006693 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1085623006694 dimer interface [polypeptide binding]; other site 1085623006695 active site 1085623006696 metal binding site [ion binding]; metal-binding site 1085623006697 glutathione binding site [chemical binding]; other site 1085623006698 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 1085623006699 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1085623006700 active site 1085623006701 catalytic site [active] 1085623006702 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1085623006703 ligand binding site [chemical binding]; other site 1085623006704 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1085623006705 ribonuclease T; Provisional; Region: PRK05168 1085623006706 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1085623006707 active site 1085623006708 catalytic site [active] 1085623006709 substrate binding site [chemical binding]; other site 1085623006710 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 1085623006711 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 1085623006712 putative GSH binding site [chemical binding]; other site 1085623006713 catalytic residues [active] 1085623006714 superoxide dismutase; Provisional; Region: PRK10543 1085623006715 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1085623006716 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1085623006717 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 1085623006718 phenyl proprionate permease family protein; Region: 2A0127; TIGR00902 1085623006719 putative substrate translocation pore; other site 1085623006720 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1085623006721 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1085623006722 Tetramer interface [polypeptide binding]; other site 1085623006723 active site 1085623006724 FMN-binding site [chemical binding]; other site 1085623006725 HemK family putative methylases; Region: hemK_fam; TIGR00536 1085623006726 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 1085623006727 S-adenosylmethionine binding site [chemical binding]; other site 1085623006728 hypothetical protein; Provisional; Region: PRK04946 1085623006729 Smr domain; Region: Smr; pfam01713 1085623006730 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 1085623006731 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1085623006732 catalytic residue [active] 1085623006733 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 1085623006734 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1085623006735 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1085623006736 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1085623006737 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1085623006738 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1085623006739 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1085623006740 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 1085623006741 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1085623006742 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1085623006743 active site 1085623006744 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1085623006745 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1085623006746 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1085623006747 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1085623006748 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 1085623006749 dimer interface [polypeptide binding]; other site 1085623006750 putative anticodon binding site; other site 1085623006751 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 1085623006752 motif 1; other site 1085623006753 active site 1085623006754 motif 2; other site 1085623006755 motif 3; other site 1085623006756 peptide chain release factor 2; Validated; Region: prfB; PRK00578 1085623006757 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1085623006758 RF-1 domain; Region: RF-1; pfam00472 1085623006759 Predicted flavoprotein [General function prediction only]; Region: COG0431 1085623006760 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1085623006761 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1085623006762 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 1085623006763 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1085623006764 active site 1085623006765 HIGH motif; other site 1085623006766 KMSK motif region; other site 1085623006767 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1085623006768 tRNA binding surface [nucleotide binding]; other site 1085623006769 anticodon binding site; other site 1085623006770 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1085623006771 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1085623006772 G1 box; other site 1085623006773 putative GEF interaction site [polypeptide binding]; other site 1085623006774 GTP/Mg2+ binding site [chemical binding]; other site 1085623006775 Switch I region; other site 1085623006776 G2 box; other site 1085623006777 G3 box; other site 1085623006778 Switch II region; other site 1085623006779 G4 box; other site 1085623006780 G5 box; other site 1085623006781 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 1085623006782 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1085623006783 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1085623006784 Coenzyme A binding pocket [chemical binding]; other site 1085623006785 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 1085623006786 thiamine kinase; Region: ycfN_thiK; TIGR02721 1085623006787 active site 1085623006788 substrate binding site [chemical binding]; other site 1085623006789 ATP binding site [chemical binding]; other site 1085623006790 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 1085623006791 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1085623006792 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 1085623006793 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 1085623006794 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 1085623006795 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 1085623006796 Helicase; Region: Helicase_RecD; pfam05127 1085623006797 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1085623006798 Coenzyme A binding pocket [chemical binding]; other site 1085623006799 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1085623006800 TPR repeat; Region: TPR_11; pfam13414 1085623006801 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 1085623006802 binding surface 1085623006803 TPR motif; other site 1085623006804 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 1085623006805 binding surface 1085623006806 TPR motif; other site 1085623006807 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1085623006808 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1085623006809 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1085623006810 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1085623006811 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1085623006812 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 1085623006813 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 1085623006814 TPR repeat; Region: TPR_11; pfam13414 1085623006815 binding surface 1085623006816 TPR motif; other site 1085623006817 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 1085623006818 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 1085623006819 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 1085623006820 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1085623006821 Late competence development protein ComFB; Region: ComFB; pfam10719 1085623006822 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1085623006823 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 1085623006824 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 1085623006825 NAD binding site [chemical binding]; other site 1085623006826 Phe binding site; other site 1085623006827 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1085623006828 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1085623006829 putative DNA binding site [nucleotide binding]; other site 1085623006830 putative Zn2+ binding site [ion binding]; other site 1085623006831 AsnC family; Region: AsnC_trans_reg; pfam01037 1085623006832 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 1085623006833 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1085623006834 C-terminal domain interface [polypeptide binding]; other site 1085623006835 GSH binding site (G-site) [chemical binding]; other site 1085623006836 putative dimer interface [polypeptide binding]; other site 1085623006837 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1085623006838 dimer interface [polypeptide binding]; other site 1085623006839 N-terminal domain interface [polypeptide binding]; other site 1085623006840 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1085623006841 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 1085623006842 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1085623006843 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 1085623006844 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 1085623006845 putative aromatic amino acid binding site; other site 1085623006846 PAS domain; Region: PAS; smart00091 1085623006847 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 1085623006848 Walker A motif; other site 1085623006849 ATP binding site [chemical binding]; other site 1085623006850 Walker B motif; other site 1085623006851 arginine finger; other site 1085623006852 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 1085623006853 cofactor binding site; other site 1085623006854 metal binding site [ion binding]; metal-binding site 1085623006855 phage shock protein C; Region: phageshock_pspC; TIGR02978 1085623006856 PspC domain; Region: PspC; pfam04024 1085623006857 phage shock protein B; Provisional; Region: pspB; PRK09458 1085623006858 phage shock protein A; Region: phageshock_pspA; TIGR02977 1085623006859 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1085623006860 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 1085623006861 Walker A motif; other site 1085623006862 ATP binding site [chemical binding]; other site 1085623006863 Walker B motif; other site 1085623006864 arginine finger; other site 1085623006865 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1085623006866 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1085623006867 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1085623006868 peptide binding site [polypeptide binding]; other site 1085623006869 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1085623006870 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 1085623006871 dimer interface [polypeptide binding]; other site 1085623006872 conserved gate region; other site 1085623006873 putative PBP binding loops; other site 1085623006874 ABC-ATPase subunit interface; other site 1085623006875 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 1085623006876 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 1085623006877 dimer interface [polypeptide binding]; other site 1085623006878 conserved gate region; other site 1085623006879 putative PBP binding loops; other site 1085623006880 ABC-ATPase subunit interface; other site 1085623006881 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 1085623006882 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1085623006883 Walker A/P-loop; other site 1085623006884 ATP binding site [chemical binding]; other site 1085623006885 Q-loop/lid; other site 1085623006886 ABC transporter signature motif; other site 1085623006887 Walker B; other site 1085623006888 D-loop; other site 1085623006889 H-loop/switch region; other site 1085623006890 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1085623006891 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 1085623006892 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1085623006893 Walker A/P-loop; other site 1085623006894 ATP binding site [chemical binding]; other site 1085623006895 Q-loop/lid; other site 1085623006896 ABC transporter signature motif; other site 1085623006897 Walker B; other site 1085623006898 D-loop; other site 1085623006899 H-loop/switch region; other site 1085623006900 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1085623006901 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 1085623006902 oxaloacetate decarboxylase; Provisional; Region: PRK14040 1085623006903 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1085623006904 active site 1085623006905 catalytic residues [active] 1085623006906 metal binding site [ion binding]; metal-binding site 1085623006907 homodimer binding site [polypeptide binding]; other site 1085623006908 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 1085623006909 carboxyltransferase (CT) interaction site; other site 1085623006910 biotinylation site [posttranslational modification]; other site 1085623006911 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 1085623006912 carbon storage regulator; Provisional; Region: PRK01712 1085623006913 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1085623006914 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 1085623006915 motif 1; other site 1085623006916 active site 1085623006917 motif 2; other site 1085623006918 motif 3; other site 1085623006919 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1085623006920 DHHA1 domain; Region: DHHA1; pfam02272 1085623006921 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1085623006922 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1085623006923 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1085623006924 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1085623006925 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1085623006926 active site 1085623006927 Zn binding site [ion binding]; other site 1085623006928 Protein of unknown function (DUF938); Region: DUF938; pfam06080 1085623006929 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 1085623006930 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 1085623006931 substrate binding pocket [chemical binding]; other site 1085623006932 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 1085623006933 B12 binding site [chemical binding]; other site 1085623006934 cobalt ligand [ion binding]; other site 1085623006935 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1085623006936 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1085623006937 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1085623006938 homoserine O-succinyltransferase; Provisional; Region: PRK05368 1085623006939 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 1085623006940 proposed active site lysine [active] 1085623006941 conserved cys residue [active] 1085623006942 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 1085623006943 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 1085623006944 putative CheA interaction surface; other site 1085623006945 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 1085623006946 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1085623006947 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 1085623006948 Magnesium ion binding site [ion binding]; other site 1085623006949 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1085623006950 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623006951 active site 1085623006952 phosphorylation site [posttranslational modification] 1085623006953 intermolecular recognition site; other site 1085623006954 dimerization interface [polypeptide binding]; other site 1085623006955 CheB methylesterase; Region: CheB_methylest; pfam01339 1085623006956 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 1085623006957 putative binding surface; other site 1085623006958 active site 1085623006959 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1085623006960 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1085623006961 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 1085623006962 ATP binding site [chemical binding]; other site 1085623006963 Mg2+ binding site [ion binding]; other site 1085623006964 G-X-G motif; other site 1085623006965 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 1085623006966 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 1085623006967 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1085623006968 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623006969 active site 1085623006970 phosphorylation site [posttranslational modification] 1085623006971 intermolecular recognition site; other site 1085623006972 dimerization interface [polypeptide binding]; other site 1085623006973 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1085623006974 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1085623006975 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 1085623006976 DNA binding residues [nucleotide binding] 1085623006977 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1085623006978 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 1085623006979 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 1085623006980 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1085623006981 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 1085623006982 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1085623006983 FHIPEP family; Region: FHIPEP; pfam00771 1085623006984 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1085623006985 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1085623006986 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623006987 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623006988 metal binding site [ion binding]; metal-binding site 1085623006989 active site 1085623006990 I-site; other site 1085623006991 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1085623006992 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1085623006993 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1085623006994 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1085623006995 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1085623006996 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 1085623006997 flagellar motor switch protein; Validated; Region: fliN; PRK08983 1085623006998 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1085623006999 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1085623007000 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 1085623007001 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1085623007002 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 1085623007003 Flagellar FliJ protein; Region: FliJ; pfam02050 1085623007004 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 1085623007005 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 1085623007006 Walker A motif/ATP binding site; other site 1085623007007 Walker B motif; other site 1085623007008 flagellar assembly protein H; Validated; Region: fliH; PRK05687 1085623007009 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 1085623007010 Flagellar assembly protein FliH; Region: FliH; pfam02108 1085623007011 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1085623007012 MgtE intracellular N domain; Region: MgtE_N; cl15244 1085623007013 FliG C-terminal domain; Region: FliG_C; pfam01706 1085623007014 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1085623007015 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1085623007016 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1085623007017 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 1085623007018 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1085623007019 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623007020 active site 1085623007021 phosphorylation site [posttranslational modification] 1085623007022 intermolecular recognition site; other site 1085623007023 dimerization interface [polypeptide binding]; other site 1085623007024 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 1085623007025 Walker A motif; other site 1085623007026 ATP binding site [chemical binding]; other site 1085623007027 Walker B motif; other site 1085623007028 arginine finger; other site 1085623007029 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1085623007030 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1085623007031 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 1085623007032 heme pocket [chemical binding]; other site 1085623007033 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 1085623007034 dimer interface [polypeptide binding]; other site 1085623007035 phosphorylation site [posttranslational modification] 1085623007036 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 1085623007037 ATP binding site [chemical binding]; other site 1085623007038 Mg2+ binding site [ion binding]; other site 1085623007039 G-X-G motif; other site 1085623007040 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1085623007041 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 1085623007042 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 1085623007043 Walker A motif; other site 1085623007044 ATP binding site [chemical binding]; other site 1085623007045 Walker B motif; other site 1085623007046 arginine finger; other site 1085623007047 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1085623007048 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1085623007049 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1085623007050 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 1085623007051 binding surface 1085623007052 TPR motif; other site 1085623007053 TPR repeat; Region: TPR_11; pfam13414 1085623007054 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1085623007055 ligand binding site; other site 1085623007056 tetramer interface; other site 1085623007057 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1085623007058 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 1085623007059 classical (c) SDRs; Region: SDR_c; cd05233 1085623007060 NAD(P) binding site [chemical binding]; other site 1085623007061 active site 1085623007062 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_2; cd12172 1085623007063 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1085623007064 putative ligand binding site [chemical binding]; other site 1085623007065 putative NAD binding site [chemical binding]; other site 1085623007066 catalytic site [active] 1085623007067 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1085623007068 active site 1085623007069 NAD binding site [chemical binding]; other site 1085623007070 metal binding site [ion binding]; metal-binding site 1085623007071 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1085623007072 classical (c) SDRs; Region: SDR_c; cd05233 1085623007073 NAD(P) binding site [chemical binding]; other site 1085623007074 active site 1085623007075 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1085623007076 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1085623007077 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1085623007078 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1085623007079 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 1085623007080 dimer interface [polypeptide binding]; other site 1085623007081 active site 1085623007082 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1085623007083 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1085623007084 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 1085623007085 LicD family; Region: LicD; pfam04991 1085623007086 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1085623007087 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 1085623007088 active site 1085623007089 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1085623007090 NAD(P) binding site [chemical binding]; other site 1085623007091 catalytic residues [active] 1085623007092 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1085623007093 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1085623007094 acyl-activating enzyme (AAE) consensus motif; other site 1085623007095 AMP binding site [chemical binding]; other site 1085623007096 active site 1085623007097 CoA binding site [chemical binding]; other site 1085623007098 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 1085623007099 glucose-1-dehydrogenase; Provisional; Region: PRK06947 1085623007100 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1085623007101 NAD(P) binding site [chemical binding]; other site 1085623007102 active site 1085623007103 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 1085623007104 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 1085623007105 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 1085623007106 pseudaminic acid synthase; Region: PseI; TIGR03586 1085623007107 NeuB family; Region: NeuB; pfam03102 1085623007108 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1085623007109 NeuB binding interface [polypeptide binding]; other site 1085623007110 putative substrate binding site [chemical binding]; other site 1085623007111 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 1085623007112 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 1085623007113 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1085623007114 ligand binding site; other site 1085623007115 tetramer interface; other site 1085623007116 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1085623007117 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 1085623007118 inhibitor-cofactor binding pocket; inhibition site 1085623007119 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1085623007120 catalytic residue [active] 1085623007121 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 1085623007122 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1085623007123 NAD(P) binding site [chemical binding]; other site 1085623007124 homodimer interface [polypeptide binding]; other site 1085623007125 substrate binding site [chemical binding]; other site 1085623007126 active site 1085623007127 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 1085623007128 flagellar protein FliS; Validated; Region: fliS; PRK05685 1085623007129 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1085623007130 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1085623007131 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1085623007132 FlaG protein; Region: FlaG; pfam03646 1085623007133 flagellin; Provisional; Region: PRK12802 1085623007134 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1085623007135 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1085623007136 flagellin; Provisional; Region: PRK12802 1085623007137 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1085623007138 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1085623007139 flagellin; Provisional; Region: PRK12802 1085623007140 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1085623007141 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1085623007142 flagellin; Provisional; Region: PRK12802 1085623007143 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1085623007144 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1085623007145 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1085623007146 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 1085623007147 ligand binding site [chemical binding]; other site 1085623007148 flexible hinge region; other site 1085623007149 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1085623007150 aldolase II superfamily protein; Provisional; Region: PRK07044 1085623007151 intersubunit interface [polypeptide binding]; other site 1085623007152 active site 1085623007153 Zn2+ binding site [ion binding]; other site 1085623007154 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 1085623007155 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1085623007156 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1085623007157 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 1085623007158 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1085623007159 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 1085623007160 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 1085623007161 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 1085623007162 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1085623007163 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1085623007164 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 1085623007165 Flagellar L-ring protein; Region: FlgH; pfam02107 1085623007166 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1085623007167 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1085623007168 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1085623007169 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1085623007170 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1085623007171 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1085623007172 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1085623007173 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1085623007174 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1085623007175 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 1085623007176 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1085623007177 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1085623007178 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1085623007179 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1085623007180 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1085623007181 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1085623007182 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1085623007183 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1085623007184 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1085623007185 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1085623007186 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1085623007187 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623007188 active site 1085623007189 phosphorylation site [posttranslational modification] 1085623007190 intermolecular recognition site; other site 1085623007191 dimerization interface [polypeptide binding]; other site 1085623007192 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 1085623007193 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1085623007194 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 1085623007195 FlgN protein; Region: FlgN; pfam05130 1085623007196 LPP20 lipoprotein; Region: LPP20; pfam02169 1085623007197 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1085623007198 Smr domain; Region: Smr; pfam01713 1085623007199 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1085623007200 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 1085623007201 dimerization interface [polypeptide binding]; other site 1085623007202 ATP binding site [chemical binding]; other site 1085623007203 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 1085623007204 dimerization interface [polypeptide binding]; other site 1085623007205 ATP binding site [chemical binding]; other site 1085623007206 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1085623007207 putative active site [active] 1085623007208 catalytic triad [active] 1085623007209 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1085623007210 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 1085623007211 substrate binding pocket [chemical binding]; other site 1085623007212 membrane-bound complex binding site; other site 1085623007213 hinge residues; other site 1085623007214 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1085623007215 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 1085623007216 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1085623007217 catalytic residue [active] 1085623007218 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 1085623007219 nucleoside/Zn binding site; other site 1085623007220 dimer interface [polypeptide binding]; other site 1085623007221 catalytic motif [active] 1085623007222 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 1085623007223 putative active site [active] 1085623007224 Zn binding site [ion binding]; other site 1085623007225 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 1085623007226 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1085623007227 GTP/Mg2+ binding site [chemical binding]; other site 1085623007228 G4 box; other site 1085623007229 G5 box; other site 1085623007230 G1 box; other site 1085623007231 Switch I region; other site 1085623007232 G2 box; other site 1085623007233 G3 box; other site 1085623007234 Switch II region; other site 1085623007235 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1085623007236 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1085623007237 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1085623007238 TrkA-N domain; Region: TrkA_N; pfam02254 1085623007239 TrkA-C domain; Region: TrkA_C; pfam02080 1085623007240 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623007241 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623007242 metal binding site [ion binding]; metal-binding site 1085623007243 active site 1085623007244 I-site; other site 1085623007245 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 1085623007246 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 1085623007247 Ligand Binding Site [chemical binding]; other site 1085623007248 TilS substrate binding domain; Region: TilS; pfam09179 1085623007249 TilS substrate C-terminal domain; Region: TilS_C; smart00977 1085623007250 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1085623007251 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1085623007252 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1085623007253 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1085623007254 putative active site [active] 1085623007255 putative PHP Thumb interface [polypeptide binding]; other site 1085623007256 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 1085623007257 generic binding surface I; other site 1085623007258 generic binding surface II; other site 1085623007259 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1085623007260 RNA/DNA hybrid binding site [nucleotide binding]; other site 1085623007261 active site 1085623007262 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1085623007263 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1085623007264 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1085623007265 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 1085623007266 active site 1085623007267 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 1085623007268 periplasmic chaperone; Provisional; Region: PRK10780 1085623007269 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1085623007270 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 1085623007271 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1085623007272 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1085623007273 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1085623007274 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1085623007275 Surface antigen; Region: Bac_surface_Ag; pfam01103 1085623007276 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1085623007277 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 1085623007278 active site 1085623007279 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 1085623007280 protein binding site [polypeptide binding]; other site 1085623007281 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 1085623007282 protein binding site [polypeptide binding]; other site 1085623007283 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 1085623007284 putative substrate binding region [chemical binding]; other site 1085623007285 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1085623007286 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1085623007287 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1085623007288 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1085623007289 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1085623007290 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1085623007291 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1085623007292 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 1085623007293 catalytic residue [active] 1085623007294 putative FPP diphosphate binding site; other site 1085623007295 putative FPP binding hydrophobic cleft; other site 1085623007296 dimer interface [polypeptide binding]; other site 1085623007297 putative IPP diphosphate binding site; other site 1085623007298 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1085623007299 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 1085623007300 hinge region; other site 1085623007301 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 1085623007302 putative nucleotide binding site [chemical binding]; other site 1085623007303 uridine monophosphate binding site [chemical binding]; other site 1085623007304 homohexameric interface [polypeptide binding]; other site 1085623007305 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]; Region: RPN2; COG5116 1085623007306 elongation factor Ts; Provisional; Region: tsf; PRK09377 1085623007307 UBA/TS-N domain; Region: UBA; pfam00627 1085623007308 Elongation factor TS; Region: EF_TS; pfam00889 1085623007309 Elongation factor TS; Region: EF_TS; pfam00889 1085623007310 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 1085623007311 rRNA interaction site [nucleotide binding]; other site 1085623007312 S8 interaction site; other site 1085623007313 putative laminin-1 binding site; other site 1085623007314 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1085623007315 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 1085623007316 FMN binding site [chemical binding]; other site 1085623007317 active site 1085623007318 substrate binding site [chemical binding]; other site 1085623007319 catalytic residue [active] 1085623007320 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 1085623007321 active site 1085623007322 PII uridylyl-transferase; Provisional; Region: PRK05007 1085623007323 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1085623007324 metal binding triad; other site 1085623007325 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1085623007326 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1085623007327 Zn2+ binding site [ion binding]; other site 1085623007328 Mg2+ binding site [ion binding]; other site 1085623007329 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 1085623007330 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 1085623007331 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1085623007332 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 1085623007333 trimer interface [polypeptide binding]; other site 1085623007334 active site 1085623007335 substrate binding site [chemical binding]; other site 1085623007336 CoA binding site [chemical binding]; other site 1085623007337 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1085623007338 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1085623007339 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 1085623007340 transmembrane helices; other site 1085623007341 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1085623007342 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1085623007343 active site 1085623007344 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 1085623007345 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 1085623007346 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 1085623007347 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 1085623007348 Syd protein (SUKH-2); Region: Syd; cl06405 1085623007349 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1085623007350 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1085623007351 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1085623007352 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623007353 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623007354 metal binding site [ion binding]; metal-binding site 1085623007355 active site 1085623007356 I-site; other site 1085623007357 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1085623007358 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1085623007359 isocitrate dehydrogenase; Provisional; Region: PRK08997 1085623007360 tartrate dehydrogenase; Region: TTC; TIGR02089 1085623007361 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1085623007362 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1085623007363 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1085623007364 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1085623007365 active site 1085623007366 tetramer interface; other site 1085623007367 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1085623007368 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1085623007369 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1085623007370 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1085623007371 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1085623007372 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1085623007373 NAD(P) binding site [chemical binding]; other site 1085623007374 homodimer interface [polypeptide binding]; other site 1085623007375 substrate binding site [chemical binding]; other site 1085623007376 active site 1085623007377 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1085623007378 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1085623007379 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1085623007380 NAD(P) binding site [chemical binding]; other site 1085623007381 active site 1085623007382 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 1085623007383 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 1085623007384 Ligand binding site; other site 1085623007385 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 1085623007386 active site 1085623007387 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1085623007388 Sulfatase; Region: Sulfatase; cl17466 1085623007389 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1085623007390 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1085623007391 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1085623007392 VacJ like lipoprotein; Region: VacJ; cl01073 1085623007393 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1085623007394 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 1085623007395 TPR motif; other site 1085623007396 binding surface 1085623007397 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1085623007398 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1085623007399 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1085623007400 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1085623007401 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 1085623007402 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 1085623007403 heme exporter protein CcmC; Region: ccmC; TIGR01191 1085623007404 heme exporter protein CcmB; Region: ccmB; TIGR01190 1085623007405 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1085623007406 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1085623007407 Walker A/P-loop; other site 1085623007408 ATP binding site [chemical binding]; other site 1085623007409 Q-loop/lid; other site 1085623007410 ABC transporter signature motif; other site 1085623007411 Walker B; other site 1085623007412 D-loop; other site 1085623007413 H-loop/switch region; other site 1085623007414 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1085623007415 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1085623007416 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 1085623007417 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1085623007418 NAD binding site [chemical binding]; other site 1085623007419 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1085623007420 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1085623007421 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1085623007422 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 1085623007423 active site 1085623007424 homodimer interface [polypeptide binding]; other site 1085623007425 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1085623007426 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1085623007427 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1085623007428 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1085623007429 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1085623007430 Ligand binding site; other site 1085623007431 Putative Catalytic site; other site 1085623007432 DXD motif; other site 1085623007433 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 1085623007434 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 1085623007435 hexamer interface [polypeptide binding]; other site 1085623007436 Walker A motif; other site 1085623007437 ATP binding site [chemical binding]; other site 1085623007438 Walker B motif; other site 1085623007439 Competence-damaged protein; Region: CinA; pfam02464 1085623007440 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1085623007441 MutS domain I; Region: MutS_I; pfam01624 1085623007442 MutS domain II; Region: MutS_II; pfam05188 1085623007443 MutS domain III; Region: MutS_III; pfam05192 1085623007444 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1085623007445 Walker A/P-loop; other site 1085623007446 ATP binding site [chemical binding]; other site 1085623007447 Q-loop/lid; other site 1085623007448 ABC transporter signature motif; other site 1085623007449 Walker B; other site 1085623007450 D-loop; other site 1085623007451 H-loop/switch region; other site 1085623007452 CTP synthetase; Validated; Region: pyrG; PRK05380 1085623007453 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 1085623007454 Catalytic site [active] 1085623007455 active site 1085623007456 UTP binding site [chemical binding]; other site 1085623007457 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1085623007458 active site 1085623007459 putative oxyanion hole; other site 1085623007460 catalytic triad [active] 1085623007461 enolase; Provisional; Region: eno; PRK00077 1085623007462 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 1085623007463 dimer interface [polypeptide binding]; other site 1085623007464 metal binding site [ion binding]; metal-binding site 1085623007465 substrate binding pocket [chemical binding]; other site 1085623007466 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 1085623007467 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 1085623007468 choice-of-anchor B domain; Region: choice_anch_B; TIGR04312 1085623007469 Calx-beta domain; Region: Calx-beta; cl02522 1085623007470 Calx-beta domain; Region: Calx-beta; cl02522 1085623007471 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1085623007472 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1085623007473 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1085623007474 Walker A/P-loop; other site 1085623007475 ATP binding site [chemical binding]; other site 1085623007476 Q-loop/lid; other site 1085623007477 ABC transporter signature motif; other site 1085623007478 Walker B; other site 1085623007479 D-loop; other site 1085623007480 H-loop/switch region; other site 1085623007481 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1085623007482 FAD binding domain; Region: FAD_binding_4; pfam01565 1085623007483 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 1085623007484 active site 1085623007485 HprK-related kinase A; Region: HprK_rel_A; TIGR04352 1085623007486 PqqD family protein, HPr-rel-A system; Region: PqqD_rel_X; TIGR04353 1085623007487 K+ potassium transporter; Region: K_trans; cl15781 1085623007488 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1085623007489 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 1085623007490 putative NAD(P) binding site [chemical binding]; other site 1085623007491 active site 1085623007492 putative substrate binding site [chemical binding]; other site 1085623007493 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1085623007494 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1085623007495 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 1085623007496 putative active site [active] 1085623007497 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1085623007498 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1085623007499 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 1085623007500 TPR motif; other site 1085623007501 binding surface 1085623007502 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 1085623007503 TPR motif; other site 1085623007504 binding surface 1085623007505 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 1085623007506 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1085623007507 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1085623007508 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1085623007509 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1085623007510 active site 1085623007511 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1085623007512 MULE transposase domain; Region: MULE; pfam10551 1085623007513 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1085623007514 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1085623007515 NAD binding site [chemical binding]; other site 1085623007516 substrate binding site [chemical binding]; other site 1085623007517 homodimer interface [polypeptide binding]; other site 1085623007518 active site 1085623007519 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1085623007520 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1085623007521 NADP binding site [chemical binding]; other site 1085623007522 active site 1085623007523 putative substrate binding site [chemical binding]; other site 1085623007524 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 1085623007525 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1085623007526 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1085623007527 substrate binding site; other site 1085623007528 tetramer interface; other site 1085623007529 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1085623007530 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 1085623007531 active site 1085623007532 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1085623007533 active site 1085623007534 KMSKS motif; other site 1085623007535 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 1085623007536 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1085623007537 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1085623007538 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1085623007539 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1085623007540 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 1085623007541 active site 1085623007542 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 1085623007543 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 1085623007544 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1085623007545 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1085623007546 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1085623007547 Probable Catalytic site; other site 1085623007548 metal-binding site 1085623007549 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 1085623007550 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 1085623007551 OpgC protein; Region: OpgC_C; cl17858 1085623007552 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1085623007553 O-Antigen ligase; Region: Wzy_C; cl04850 1085623007554 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1085623007555 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 1085623007556 acyl-activating enzyme (AAE) consensus motif; other site 1085623007557 AMP binding site [chemical binding]; other site 1085623007558 active site 1085623007559 CoA binding site [chemical binding]; other site 1085623007560 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 1085623007561 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1085623007562 PEP-CTERM/exosortase A-associated glycosyltransferase, Daro_2409 family; Region: stp3; TIGR04063 1085623007563 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 1085623007564 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 1085623007565 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 1085623007566 active site 1085623007567 dimer interface [polypeptide binding]; other site 1085623007568 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 1085623007569 Ligand Binding Site [chemical binding]; other site 1085623007570 Molecular Tunnel; other site 1085623007571 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 1085623007572 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 1085623007573 putative ADP-binding pocket [chemical binding]; other site 1085623007574 exosortase A; Region: exosortase_1; TIGR03109 1085623007575 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 1085623007576 Protein of unknown function (DUF3485); Region: DUF3485; cl11827 1085623007577 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 1085623007578 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1085623007579 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1085623007580 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 1085623007581 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 1085623007582 putative active site [active] 1085623007583 putative catalytic site [active] 1085623007584 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 1085623007585 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1085623007586 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1085623007587 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1085623007588 SLBB domain; Region: SLBB; pfam10531 1085623007589 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 1085623007590 Chain length determinant protein; Region: Wzz; cl15801 1085623007591 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 1085623007592 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 1085623007593 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 1085623007594 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 1085623007595 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 1085623007596 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 1085623007597 putative ribose interaction site [chemical binding]; other site 1085623007598 putative ADP binding site [chemical binding]; other site 1085623007599 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1085623007600 active site 1085623007601 nucleotide binding site [chemical binding]; other site 1085623007602 HIGH motif; other site 1085623007603 KMSKS motif; other site 1085623007604 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1085623007605 GIY-YIG motif/motif A; other site 1085623007606 putative active site [active] 1085623007607 putative metal binding site [ion binding]; other site 1085623007608 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1085623007609 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1085623007610 metal binding triad; other site 1085623007611 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1085623007612 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1085623007613 metal binding triad; other site 1085623007614 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1085623007615 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 1085623007616 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1085623007617 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1085623007618 putative acyl-acceptor binding pocket; other site 1085623007619 Protein of unknown function (DUF3081); Region: DUF3081; pfam11280 1085623007620 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 1085623007621 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1085623007622 active site 1085623007623 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1085623007624 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623007625 metal binding site [ion binding]; metal-binding site 1085623007626 active site 1085623007627 I-site; other site 1085623007628 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 1085623007629 thymidine kinase; Provisional; Region: PRK04296 1085623007630 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1085623007631 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1085623007632 active site 1085623007633 Phosphotransferase enzyme family; Region: APH; pfam01636 1085623007634 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 1085623007635 putative active site [active] 1085623007636 putative substrate binding site [chemical binding]; other site 1085623007637 ATP binding site [chemical binding]; other site 1085623007638 short chain dehydrogenase; Provisional; Region: PRK08251 1085623007639 classical (c) SDR, subgroup 6; Region: SDR_c6; cd05350 1085623007640 putative NAD(P) binding site [chemical binding]; other site 1085623007641 active site 1085623007642 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1085623007643 Sodium Bile acid symporter family; Region: SBF; cl17470 1085623007644 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1085623007645 Beta-lactamase; Region: Beta-lactamase; pfam00144 1085623007646 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 1085623007647 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1085623007648 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 1085623007649 TrkA-N domain; Region: TrkA_N; pfam02254 1085623007650 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 1085623007651 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1085623007652 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1085623007653 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 1085623007654 hypothetical protein; Provisional; Region: PRK05409 1085623007655 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 1085623007656 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1085623007657 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1085623007658 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 1085623007659 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 1085623007660 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1085623007661 putative ADP-binding pocket [chemical binding]; other site 1085623007662 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1085623007663 putative catalytic site [active] 1085623007664 putative metal binding site [ion binding]; other site 1085623007665 putative phosphate binding site [ion binding]; other site 1085623007666 kynureninase; Region: kynureninase; TIGR01814 1085623007667 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 1085623007668 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1085623007669 catalytic residue [active] 1085623007670 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 1085623007671 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1085623007672 substrate binding pocket [chemical binding]; other site 1085623007673 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 1085623007674 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 1085623007675 AAA domain; Region: AAA_28; pfam13521 1085623007676 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 1085623007677 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 1085623007678 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 1085623007679 catalytic core [active] 1085623007680 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 1085623007681 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 1085623007682 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1085623007683 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1085623007684 Penicillin amidase; Region: Penicil_amidase; pfam01804 1085623007685 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 1085623007686 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 1085623007687 active site 1085623007688 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 1085623007689 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1085623007690 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 1085623007691 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 1085623007692 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 1085623007693 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 1085623007694 putative substrate translocation pore; other site 1085623007695 H+ Antiporter protein; Region: 2A0121; TIGR00900 1085623007696 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1085623007697 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1085623007698 putative acyl-acceptor binding pocket; other site 1085623007699 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1085623007700 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 1085623007701 homodimer interface [polypeptide binding]; other site 1085623007702 substrate-cofactor binding pocket; other site 1085623007703 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1085623007704 catalytic residue [active] 1085623007705 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 1085623007706 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1085623007707 putative active site [active] 1085623007708 heme pocket [chemical binding]; other site 1085623007709 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 1085623007710 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1085623007711 putative active site [active] 1085623007712 heme pocket [chemical binding]; other site 1085623007713 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 1085623007714 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1085623007715 putative active site [active] 1085623007716 heme pocket [chemical binding]; other site 1085623007717 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1085623007718 putative CheW interface [polypeptide binding]; other site 1085623007719 hypothetical protein; Provisional; Region: PRK01254 1085623007720 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 1085623007721 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 1085623007722 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 1085623007723 aconitate hydratase; Validated; Region: PRK09277 1085623007724 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1085623007725 substrate binding site [chemical binding]; other site 1085623007726 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1085623007727 ligand binding site [chemical binding]; other site 1085623007728 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 1085623007729 substrate binding site [chemical binding]; other site 1085623007730 Class II fumarases; Region: Fumarase_classII; cd01362 1085623007731 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1085623007732 active site 1085623007733 tetramer interface [polypeptide binding]; other site 1085623007734 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 1085623007735 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 1085623007736 Protein of unknown function, DUF547; Region: DUF547; pfam04784 1085623007737 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 1085623007738 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 1085623007739 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1085623007740 11beta-hydroxysteroid dehydrogenase type 1 (11beta-HSD1)-like, classical (c) SDRs; Region: 11beta-HSD1_like_SDR_c; cd05332 1085623007741 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1085623007742 NADP binding site [chemical binding]; other site 1085623007743 homodimer interface [polypeptide binding]; other site 1085623007744 substrate binding site [chemical binding]; other site 1085623007745 active site 1085623007746 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 1085623007747 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 1085623007748 active site 1085623007749 catalytic tetrad [active] 1085623007750 TPR repeat; Region: TPR_11; pfam13414 1085623007751 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 1085623007752 binding surface 1085623007753 TPR motif; other site 1085623007754 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1085623007755 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 1085623007756 binding surface 1085623007757 TPR motif; other site 1085623007758 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 1085623007759 binding surface 1085623007760 TPR motif; other site 1085623007761 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1085623007762 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 1085623007763 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623007764 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623007765 metal binding site [ion binding]; metal-binding site 1085623007766 active site 1085623007767 I-site; other site 1085623007768 choice-of-anchor C domain; Region: choice_anch_C; TIGR04362 1085623007769 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 1085623007770 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1085623007771 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1085623007772 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 1085623007773 substrate binding pocket [chemical binding]; other site 1085623007774 dimerization interface [polypeptide binding]; other site 1085623007775 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1085623007776 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1085623007777 putative NAD(P) binding site [chemical binding]; other site 1085623007778 dimer interface [polypeptide binding]; other site 1085623007779 glycine dehydrogenase; Provisional; Region: PRK05367 1085623007780 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 1085623007781 tetramer interface [polypeptide binding]; other site 1085623007782 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1085623007783 catalytic residue [active] 1085623007784 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 1085623007785 tetramer interface [polypeptide binding]; other site 1085623007786 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1085623007787 catalytic residue [active] 1085623007788 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 1085623007789 lipoyl attachment site [posttranslational modification]; other site 1085623007790 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1085623007791 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1085623007792 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1085623007793 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1085623007794 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 1085623007795 dimerization interface [polypeptide binding]; other site 1085623007796 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1085623007797 putative active site [active] 1085623007798 putative metal binding site [ion binding]; other site 1085623007799 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 1085623007800 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 1085623007801 Amidohydrolase; Region: Amidohydro_4; pfam13147 1085623007802 active site 1085623007803 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1085623007804 hypothetical protein; Provisional; Region: PRK05421 1085623007805 putative catalytic site [active] 1085623007806 putative metal binding site [ion binding]; other site 1085623007807 putative phosphate binding site [ion binding]; other site 1085623007808 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1085623007809 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 1085623007810 putative active site [active] 1085623007811 catalytic site [active] 1085623007812 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 1085623007813 putative active site [active] 1085623007814 catalytic site [active] 1085623007815 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1085623007816 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1085623007817 proline aminopeptidase P II; Provisional; Region: PRK10879 1085623007818 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1085623007819 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 1085623007820 active site 1085623007821 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 1085623007822 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 1085623007823 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1085623007824 substrate binding site [chemical binding]; other site 1085623007825 dimer interface [polypeptide binding]; other site 1085623007826 ATP binding site [chemical binding]; other site 1085623007827 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 1085623007828 active site 1085623007829 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1085623007830 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1085623007831 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 1085623007832 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1085623007833 active site 1085623007834 dimer interface [polypeptide binding]; other site 1085623007835 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1085623007836 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1085623007837 ligand binding site [chemical binding]; other site 1085623007838 NAD binding site [chemical binding]; other site 1085623007839 tetramer interface [polypeptide binding]; other site 1085623007840 catalytic site [active] 1085623007841 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1085623007842 L-serine binding site [chemical binding]; other site 1085623007843 ACT domain interface; other site 1085623007844 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1085623007845 Protein of unknown function, DUF481; Region: DUF481; pfam04338 1085623007846 Protein of unknown function, DUF481; Region: DUF481; pfam04338 1085623007847 HDOD domain; Region: HDOD; pfam08668 1085623007848 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 1085623007849 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1085623007850 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1085623007851 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1085623007852 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1085623007853 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 1085623007854 E3 interaction surface; other site 1085623007855 lipoyl attachment site [posttranslational modification]; other site 1085623007856 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1085623007857 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 1085623007858 E3 interaction surface; other site 1085623007859 lipoyl attachment site [posttranslational modification]; other site 1085623007860 e3 binding domain; Region: E3_binding; pfam02817 1085623007861 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1085623007862 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1085623007863 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 1085623007864 dimer interface [polypeptide binding]; other site 1085623007865 TPP-binding site [chemical binding]; other site 1085623007866 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 1085623007867 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1085623007868 DNA-binding site [nucleotide binding]; DNA binding site 1085623007869 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1085623007870 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 1085623007871 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 1085623007872 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 1085623007873 dimerization interface [polypeptide binding]; other site 1085623007874 active site 1085623007875 putative major pilin subunit; Provisional; Region: PRK10574 1085623007876 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1085623007877 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1085623007878 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1085623007879 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 1085623007880 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1085623007881 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1085623007882 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1085623007883 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 1085623007884 CoA-binding site [chemical binding]; other site 1085623007885 ATP-binding [chemical binding]; other site 1085623007886 hypothetical protein; Provisional; Region: PRK05287 1085623007887 Domain of unknown function (DUF329); Region: DUF329; cl01144 1085623007888 aspartoacylase; Provisional; Region: PRK02259 1085623007889 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1085623007890 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1085623007891 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1085623007892 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1085623007893 HlyD family secretion protein; Region: HlyD_3; pfam13437 1085623007894 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1085623007895 Protein export membrane protein; Region: SecD_SecF; cl14618 1085623007896 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 1085623007897 active site 1085623007898 8-oxo-dGMP binding site [chemical binding]; other site 1085623007899 nudix motif; other site 1085623007900 metal binding site [ion binding]; metal-binding site 1085623007901 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1085623007902 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1085623007903 SEC-C motif; Region: SEC-C; pfam02810 1085623007904 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1085623007905 Peptidase family M23; Region: Peptidase_M23; pfam01551 1085623007906 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1085623007907 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1085623007908 cell division protein FtsZ; Validated; Region: PRK09330 1085623007909 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 1085623007910 nucleotide binding site [chemical binding]; other site 1085623007911 SulA interaction site; other site 1085623007912 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 1085623007913 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1085623007914 nucleotide binding site [chemical binding]; other site 1085623007915 Cell division protein FtsA; Region: FtsA; pfam14450 1085623007916 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1085623007917 Cell division protein FtsQ; Region: FtsQ; pfam03799 1085623007918 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1085623007919 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1085623007920 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1085623007921 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1085623007922 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1085623007923 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1085623007924 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1085623007925 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1085623007926 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 1085623007927 active site 1085623007928 homodimer interface [polypeptide binding]; other site 1085623007929 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1085623007930 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 1085623007931 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1085623007932 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1085623007933 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1085623007934 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 1085623007935 Mg++ binding site [ion binding]; other site 1085623007936 putative catalytic motif [active] 1085623007937 putative substrate binding site [chemical binding]; other site 1085623007938 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 1085623007939 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1085623007940 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1085623007941 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1085623007942 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1085623007943 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1085623007944 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1085623007945 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1085623007946 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 1085623007947 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1085623007948 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1085623007949 Cell division protein FtsL; Region: FtsL; pfam04999 1085623007950 MraW methylase family; Region: Methyltransf_5; pfam01795 1085623007951 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1085623007952 MraZ protein; Region: MraZ; pfam02381 1085623007953 SapC; Region: SapC; pfam07277 1085623007954 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 1085623007955 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1085623007956 active site 1085623007957 dimer interface [polypeptide binding]; other site 1085623007958 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 1085623007959 HEAT repeats; Region: HEAT_2; pfam13646 1085623007960 HEAT repeats; Region: HEAT_2; pfam13646 1085623007961 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1085623007962 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 1085623007963 catalytic triad [active] 1085623007964 dimer interface [polypeptide binding]; other site 1085623007965 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1085623007966 ParA-like protein; Provisional; Region: PHA02518 1085623007967 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 1085623007968 P-loop; other site 1085623007969 Magnesium ion binding site [ion binding]; other site 1085623007970 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 1085623007971 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623007972 active site 1085623007973 phosphorylation site [posttranslational modification] 1085623007974 intermolecular recognition site; other site 1085623007975 dimerization interface [polypeptide binding]; other site 1085623007976 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 1085623007977 Walker A motif; other site 1085623007978 ATP binding site [chemical binding]; other site 1085623007979 Walker B motif; other site 1085623007980 arginine finger; other site 1085623007981 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1085623007982 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 1085623007983 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 1085623007984 ATP binding site [chemical binding]; other site 1085623007985 Mg2+ binding site [ion binding]; other site 1085623007986 G-X-G motif; other site 1085623007987 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 1085623007988 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 1085623007989 dimer interface [polypeptide binding]; other site 1085623007990 active site 1085623007991 CoA binding pocket [chemical binding]; other site 1085623007992 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1085623007993 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1085623007994 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1085623007995 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 1085623007996 dimerization interface [polypeptide binding]; other site 1085623007997 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1085623007998 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1085623007999 transcriptional regulator PhoU; Provisional; Region: PRK11115 1085623008000 PhoU domain; Region: PhoU; pfam01895 1085623008001 PhoU domain; Region: PhoU; pfam01895 1085623008002 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 1085623008003 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1085623008004 Walker A/P-loop; other site 1085623008005 ATP binding site [chemical binding]; other site 1085623008006 Q-loop/lid; other site 1085623008007 ABC transporter signature motif; other site 1085623008008 Walker B; other site 1085623008009 D-loop; other site 1085623008010 H-loop/switch region; other site 1085623008011 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 1085623008012 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 1085623008013 ABC-ATPase subunit interface; other site 1085623008014 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 1085623008015 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 1085623008016 dimer interface [polypeptide binding]; other site 1085623008017 conserved gate region; other site 1085623008018 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 1085623008019 ABC-ATPase subunit interface; other site 1085623008020 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1085623008021 ACT domain; Region: ACT_6; pfam13740 1085623008022 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 1085623008023 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1085623008024 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 1085623008025 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1085623008026 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 1085623008027 domain interface [polypeptide binding]; other site 1085623008028 active site 1085623008029 catalytic site [active] 1085623008030 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 1085623008031 domain interface [polypeptide binding]; other site 1085623008032 active site 1085623008033 catalytic site [active] 1085623008034 exopolyphosphatase; Provisional; Region: PRK10854 1085623008035 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1085623008036 nucleotide binding site [chemical binding]; other site 1085623008037 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 1085623008038 catalytic residue [active] 1085623008039 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 1085623008040 Phosphoglycerate kinase; Region: PGK; pfam00162 1085623008041 substrate binding site [chemical binding]; other site 1085623008042 hinge regions; other site 1085623008043 ADP binding site [chemical binding]; other site 1085623008044 catalytic site [active] 1085623008045 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 1085623008046 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1085623008047 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1085623008048 transketolase; Reviewed; Region: PRK12753 1085623008049 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 1085623008050 TPP-binding site [chemical binding]; other site 1085623008051 dimer interface [polypeptide binding]; other site 1085623008052 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 1085623008053 PYR/PP interface [polypeptide binding]; other site 1085623008054 dimer interface [polypeptide binding]; other site 1085623008055 TPP binding site [chemical binding]; other site 1085623008056 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1085623008057 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1085623008058 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1085623008059 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1085623008060 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1085623008061 Peptidase family M48; Region: Peptidase_M48; pfam01435 1085623008062 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1085623008063 RNA methyltransferase, RsmE family; Region: TIGR00046 1085623008064 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1085623008065 glutathione synthetase; Provisional; Region: PRK05246 1085623008066 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1085623008067 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1085623008068 hypothetical protein; Validated; Region: PRK00228 1085623008069 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1085623008070 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623008071 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623008072 metal binding site [ion binding]; metal-binding site 1085623008073 active site 1085623008074 I-site; other site 1085623008075 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1085623008076 Domain of unknown function (DUF3825); Region: DUF3825; pfam12873 1085623008077 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 1085623008078 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 1085623008079 ATP binding site [chemical binding]; other site 1085623008080 Walker B motif; other site 1085623008081 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1085623008082 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 1085623008083 Walker A motif; other site 1085623008084 ATP binding site [chemical binding]; other site 1085623008085 Walker B motif; other site 1085623008086 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1085623008087 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1085623008088 catalytic residue [active] 1085623008089 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1085623008090 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1085623008091 YGGT family; Region: YGGT; pfam02325 1085623008092 YGGT family; Region: YGGT; pfam02325 1085623008093 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 1085623008094 hypothetical protein; Validated; Region: PRK02101 1085623008095 transaldolase-like protein; Provisional; Region: PTZ00411 1085623008096 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1085623008097 active site 1085623008098 dimer interface [polypeptide binding]; other site 1085623008099 catalytic residue [active] 1085623008100 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1085623008101 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 1085623008102 active site 1085623008103 dimer interface [polypeptide binding]; other site 1085623008104 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 1085623008105 dimer interface [polypeptide binding]; other site 1085623008106 active site 1085623008107 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 1085623008108 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1085623008109 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1085623008110 ligand binding site [chemical binding]; other site 1085623008111 active site 1085623008112 UGI interface [polypeptide binding]; other site 1085623008113 catalytic site [active] 1085623008114 threonine synthase; Validated; Region: PRK09225 1085623008115 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1085623008116 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1085623008117 catalytic residue [active] 1085623008118 homoserine kinase; Provisional; Region: PRK01212 1085623008119 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1085623008120 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1085623008121 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 1085623008122 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 1085623008123 putative catalytic residues [active] 1085623008124 putative nucleotide binding site [chemical binding]; other site 1085623008125 putative aspartate binding site [chemical binding]; other site 1085623008126 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 1085623008127 dimer interface [polypeptide binding]; other site 1085623008128 putative threonine allosteric regulatory site; other site 1085623008129 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 1085623008130 putative threonine allosteric regulatory site; other site 1085623008131 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1085623008132 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1085623008133 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 1085623008134 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1085623008135 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 1085623008136 ATP binding site [chemical binding]; other site 1085623008137 Mg++ binding site [ion binding]; other site 1085623008138 motif III; other site 1085623008139 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 1085623008140 nucleotide binding region [chemical binding]; other site 1085623008141 ATP-binding site [chemical binding]; other site 1085623008142 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 1085623008143 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1085623008144 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; pfam06315 1085623008145 MAPEG family; Region: MAPEG; cl09190 1085623008146 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1085623008147 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623008148 active site 1085623008149 phosphorylation site [posttranslational modification] 1085623008150 intermolecular recognition site; other site 1085623008151 dimerization interface [polypeptide binding]; other site 1085623008152 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 1085623008153 DNA binding site [nucleotide binding] 1085623008154 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1085623008155 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 1085623008156 dimer interface [polypeptide binding]; other site 1085623008157 phosphorylation site [posttranslational modification] 1085623008158 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 1085623008159 ATP binding site [chemical binding]; other site 1085623008160 Mg2+ binding site [ion binding]; other site 1085623008161 G-X-G motif; other site 1085623008162 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 1085623008163 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 1085623008164 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1085623008165 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1085623008166 catalytic residue [active] 1085623008167 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1085623008168 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1085623008169 NAD(P) binding pocket [chemical binding]; other site 1085623008170 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1085623008171 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1085623008172 dimer interface [polypeptide binding]; other site 1085623008173 active site 1085623008174 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1085623008175 catalytic residues [active] 1085623008176 substrate binding site [chemical binding]; other site 1085623008177 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1085623008178 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1085623008179 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 1085623008180 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 1085623008181 AAA domain; Region: AAA_18; pfam13238 1085623008182 ATP-binding site [chemical binding]; other site 1085623008183 Sugar specificity; other site 1085623008184 Pyrimidine base specificity; other site 1085623008185 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1085623008186 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1085623008187 Nucleoside recognition; Region: Gate; pfam07670 1085623008188 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1085623008189 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1085623008190 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1085623008191 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1085623008192 TPR repeat; Region: TPR_11; pfam13414 1085623008193 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 1085623008194 binding surface 1085623008195 TPR motif; other site 1085623008196 TPR repeat; Region: TPR_11; pfam13414 1085623008197 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 1085623008198 TPR motif; other site 1085623008199 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1085623008200 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1085623008201 active site 1085623008202 catalytic site [active] 1085623008203 substrate binding site [chemical binding]; other site 1085623008204 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 1085623008205 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 1085623008206 ligand binding site [chemical binding]; other site 1085623008207 flexible hinge region; other site 1085623008208 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 1085623008209 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1085623008210 metal binding triad; other site 1085623008211 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1085623008212 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1085623008213 Na binding site [ion binding]; other site 1085623008214 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 1085623008215 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1085623008216 Na binding site [ion binding]; other site 1085623008217 PAS fold; Region: PAS_7; pfam12860 1085623008218 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1085623008219 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 1085623008220 dimer interface [polypeptide binding]; other site 1085623008221 phosphorylation site [posttranslational modification] 1085623008222 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 1085623008223 ATP binding site [chemical binding]; other site 1085623008224 Mg2+ binding site [ion binding]; other site 1085623008225 G-X-G motif; other site 1085623008226 Response regulator receiver domain; Region: Response_reg; pfam00072 1085623008227 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623008228 active site 1085623008229 phosphorylation site [posttranslational modification] 1085623008230 intermolecular recognition site; other site 1085623008231 dimerization interface [polypeptide binding]; other site 1085623008232 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 1085623008233 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1085623008234 Protein required for attachment to host cells; Region: Host_attach; pfam10116 1085623008235 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1085623008236 DNA ligase; Provisional; Region: PRK09125 1085623008237 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 1085623008238 DNA binding site [nucleotide binding] 1085623008239 active site 1085623008240 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 1085623008241 DNA binding site [nucleotide binding] 1085623008242 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1085623008243 GAF domain; Region: GAF; pfam01590 1085623008244 PAS fold; Region: PAS_3; pfam08447 1085623008245 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1085623008246 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 1085623008247 dimer interface [polypeptide binding]; other site 1085623008248 phosphorylation site [posttranslational modification] 1085623008249 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 1085623008250 ATP binding site [chemical binding]; other site 1085623008251 Mg2+ binding site [ion binding]; other site 1085623008252 G-X-G motif; other site 1085623008253 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1085623008254 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623008255 active site 1085623008256 phosphorylation site [posttranslational modification] 1085623008257 intermolecular recognition site; other site 1085623008258 dimerization interface [polypeptide binding]; other site 1085623008259 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1085623008260 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623008261 active site 1085623008262 phosphorylation site [posttranslational modification] 1085623008263 intermolecular recognition site; other site 1085623008264 dimerization interface [polypeptide binding]; other site 1085623008265 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 1085623008266 DNA binding residues [nucleotide binding] 1085623008267 dimerization interface [polypeptide binding]; other site 1085623008268 acetyl-CoA synthetase; Provisional; Region: PRK00174 1085623008269 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1085623008270 active site 1085623008271 CoA binding site [chemical binding]; other site 1085623008272 acyl-activating enzyme (AAE) consensus motif; other site 1085623008273 AMP binding site [chemical binding]; other site 1085623008274 acetate binding site [chemical binding]; other site 1085623008275 HDOD domain; Region: HDOD; pfam08668 1085623008276 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 1085623008277 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1085623008278 active site 1085623008279 catalytic tetrad [active] 1085623008280 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1085623008281 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 1085623008282 putative active site [active] 1085623008283 Zn binding site [ion binding]; other site 1085623008284 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 1085623008285 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1085623008286 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1085623008287 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1085623008288 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1085623008289 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1085623008290 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 1085623008291 putative ligand binding site [chemical binding]; other site 1085623008292 putative NAD binding site [chemical binding]; other site 1085623008293 catalytic site [active] 1085623008294 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1085623008295 Coenzyme A binding pocket [chemical binding]; other site 1085623008296 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623008297 active site 1085623008298 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 1085623008299 phosphorylation site [posttranslational modification] 1085623008300 intermolecular recognition site; other site 1085623008301 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623008302 active site 1085623008303 phosphorylation site [posttranslational modification] 1085623008304 intermolecular recognition site; other site 1085623008305 dimerization interface [polypeptide binding]; other site 1085623008306 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623008307 metal binding site [ion binding]; metal-binding site 1085623008308 active site 1085623008309 I-site; other site 1085623008310 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1085623008311 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1085623008312 dimer interface [polypeptide binding]; other site 1085623008313 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1085623008314 active site 1085623008315 Fe binding site [ion binding]; other site 1085623008316 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 1085623008317 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1085623008318 Zn binding site [ion binding]; other site 1085623008319 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 1085623008320 binding surface 1085623008321 TPR motif; other site 1085623008322 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1085623008323 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1085623008324 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1085623008325 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1085623008326 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1085623008327 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 1085623008328 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1085623008329 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 1085623008330 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 1085623008331 PBP superfamily domain; Region: PBP_like_2; cl17296 1085623008332 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 1085623008333 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 1085623008334 PAS domain; Region: PAS; smart00091 1085623008335 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 1085623008336 dimer interface [polypeptide binding]; other site 1085623008337 phosphorylation site [posttranslational modification] 1085623008338 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 1085623008339 ATP binding site [chemical binding]; other site 1085623008340 Mg2+ binding site [ion binding]; other site 1085623008341 G-X-G motif; other site 1085623008342 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1085623008343 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623008344 active site 1085623008345 phosphorylation site [posttranslational modification] 1085623008346 intermolecular recognition site; other site 1085623008347 dimerization interface [polypeptide binding]; other site 1085623008348 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 1085623008349 DNA binding site [nucleotide binding] 1085623008350 recombination associated protein; Reviewed; Region: rdgC; PRK00321 1085623008351 HDOD domain; Region: HDOD; pfam08668 1085623008352 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 1085623008353 nucleotide binding site/active site [active] 1085623008354 HIT family signature motif; other site 1085623008355 catalytic residue [active] 1085623008356 Bacitracin resistance protein BacA; Region: BacA; pfam02673 1085623008357 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 1085623008358 catalytic center binding site [active] 1085623008359 ATP binding site [chemical binding]; other site 1085623008360 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 1085623008361 homooctamer interface [polypeptide binding]; other site 1085623008362 active site 1085623008363 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1085623008364 UGMP family protein; Validated; Region: PRK09604 1085623008365 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1085623008366 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1085623008367 Yqey-like protein; Region: YqeY; pfam09424 1085623008368 DNA primase; Validated; Region: dnaG; PRK05667 1085623008369 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1085623008370 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1085623008371 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 1085623008372 active site 1085623008373 metal binding site [ion binding]; metal-binding site 1085623008374 interdomain interaction site; other site 1085623008375 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1085623008376 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1085623008377 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1085623008378 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1085623008379 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1085623008380 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1085623008381 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1085623008382 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1085623008383 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 1085623008384 DNA binding residues [nucleotide binding] 1085623008385 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1085623008386 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1085623008387 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1085623008388 HlyD family secretion protein; Region: HlyD_3; pfam13437 1085623008389 C2 domain; Region: C2; cl14603 1085623008390 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1085623008391 nudix motif; other site 1085623008392 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1085623008393 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1085623008394 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1085623008395 active site 1085623008396 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1085623008397 EamA-like transporter family; Region: EamA; pfam00892 1085623008398 methionine gamma-lyase; Provisional; Region: PRK07503 1085623008399 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 1085623008400 homodimer interface [polypeptide binding]; other site 1085623008401 substrate-cofactor binding pocket; other site 1085623008402 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1085623008403 catalytic residue [active] 1085623008404 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1085623008405 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 1085623008406 putative DNA binding site [nucleotide binding]; other site 1085623008407 putative Zn2+ binding site [ion binding]; other site 1085623008408 AsnC family; Region: AsnC_trans_reg; pfam01037 1085623008409 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1085623008410 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1085623008411 Coenzyme A binding pocket [chemical binding]; other site 1085623008412 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 1085623008413 putative deacylase active site [active] 1085623008414 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 1085623008415 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1085623008416 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1085623008417 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 1085623008418 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1085623008419 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1085623008420 serine/threonine protein kinase; Provisional; Region: PRK11768 1085623008421 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1085623008422 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 1085623008423 N-terminal plug; other site 1085623008424 ligand-binding site [chemical binding]; other site 1085623008425 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 1085623008426 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1085623008427 catalytic residues [active] 1085623008428 hinge region; other site 1085623008429 alpha helical domain; other site 1085623008430 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 1085623008431 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1085623008432 catalytic residues [active] 1085623008433 hinge region; other site 1085623008434 alpha helical domain; other site 1085623008435 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 1085623008436 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1085623008437 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1085623008438 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1085623008439 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1085623008440 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 1085623008441 BolA-like protein; Region: BolA; cl00386 1085623008442 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 1085623008443 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 1085623008444 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 1085623008445 S-adenosylmethionine binding site [chemical binding]; other site 1085623008446 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 1085623008447 active site 1085623008448 acetolactate synthase; Reviewed; Region: PRK08322 1085623008449 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1085623008450 PYR/PP interface [polypeptide binding]; other site 1085623008451 dimer interface [polypeptide binding]; other site 1085623008452 TPP binding site [chemical binding]; other site 1085623008453 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1085623008454 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 1085623008455 TPP-binding site [chemical binding]; other site 1085623008456 dimer interface [polypeptide binding]; other site 1085623008457 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 1085623008458 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1085623008459 NAD(P) binding site [chemical binding]; other site 1085623008460 catalytic residues [active] 1085623008461 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1085623008462 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 1085623008463 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1085623008464 pseudouridine synthase; Region: TIGR00093 1085623008465 active site 1085623008466 uracil binding [chemical binding]; other site 1085623008467 peroxiredoxin; Provisional; Region: PRK13189 1085623008468 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 1085623008469 dimer interface [polypeptide binding]; other site 1085623008470 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1085623008471 catalytic triad [active] 1085623008472 Uncharacterized protein domain (DUF2202); Region: DUF2202; pfam09968 1085623008473 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB2; cd01048 1085623008474 diiron binding motif [ion binding]; other site 1085623008475 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 1085623008476 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 1085623008477 FAD binding pocket [chemical binding]; other site 1085623008478 FAD binding motif [chemical binding]; other site 1085623008479 phosphate binding motif [ion binding]; other site 1085623008480 beta-alpha-beta structure motif; other site 1085623008481 NAD binding pocket [chemical binding]; other site 1085623008482 Iron coordination center [ion binding]; other site 1085623008483 sulfite reductase, subunit A; Region: sulfite_red_A; TIGR02910 1085623008484 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 1085623008485 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1085623008486 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 1085623008487 [4Fe-4S] binding site [ion binding]; other site 1085623008488 molybdopterin cofactor binding site; other site 1085623008489 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 1085623008490 molybdopterin cofactor binding site; other site 1085623008491 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 1085623008492 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 1085623008493 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1085623008494 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1085623008495 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 1085623008496 E3 interaction surface; other site 1085623008497 lipoyl attachment site [posttranslational modification]; other site 1085623008498 e3 binding domain; Region: E3_binding; pfam02817 1085623008499 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1085623008500 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1085623008501 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 1085623008502 alpha subunit interface [polypeptide binding]; other site 1085623008503 TPP binding site [chemical binding]; other site 1085623008504 heterodimer interface [polypeptide binding]; other site 1085623008505 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1085623008506 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 1085623008507 TPP-binding site [chemical binding]; other site 1085623008508 tetramer interface [polypeptide binding]; other site 1085623008509 heterodimer interface [polypeptide binding]; other site 1085623008510 phosphorylation loop region [posttranslational modification] 1085623008511 acetyl-CoA synthetase; Provisional; Region: PRK04319 1085623008512 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1085623008513 acyl-activating enzyme (AAE) consensus motif; other site 1085623008514 AMP binding site [chemical binding]; other site 1085623008515 active site 1085623008516 CoA binding site [chemical binding]; other site 1085623008517 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1085623008518 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1085623008519 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1085623008520 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 1085623008521 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 1085623008522 motif 1; other site 1085623008523 dimer interface [polypeptide binding]; other site 1085623008524 active site 1085623008525 motif 2; other site 1085623008526 motif 3; other site 1085623008527 elongation factor P; Validated; Region: PRK00529 1085623008528 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1085623008529 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 1085623008530 RNA binding site [nucleotide binding]; other site 1085623008531 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 1085623008532 RNA binding site [nucleotide binding]; other site 1085623008533 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 1085623008534 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 1085623008535 FeS/SAM binding site; other site 1085623008536 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; pfam10043 1085623008537 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1085623008538 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 1085623008539 ATP binding site [chemical binding]; other site 1085623008540 Mg2+ binding site [ion binding]; other site 1085623008541 G-X-G motif; other site 1085623008542 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 1085623008543 anchoring element; other site 1085623008544 dimer interface [polypeptide binding]; other site 1085623008545 ATP binding site [chemical binding]; other site 1085623008546 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 1085623008547 active site 1085623008548 metal binding site [ion binding]; metal-binding site 1085623008549 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1085623008550 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1085623008551 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 1085623008552 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1085623008553 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 1085623008554 dimer interface [polypeptide binding]; other site 1085623008555 ADP-ribose binding site [chemical binding]; other site 1085623008556 active site 1085623008557 nudix motif; other site 1085623008558 metal binding site [ion binding]; metal-binding site 1085623008559 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 1085623008560 Ion transport protein; Region: Ion_trans; pfam00520 1085623008561 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1085623008562 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 1085623008563 TPR motif; other site 1085623008564 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 1085623008565 TPR motif; other site 1085623008566 binding surface 1085623008567 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 1085623008568 TPR motif; other site 1085623008569 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1085623008570 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 1085623008571 ATP binding site [chemical binding]; other site 1085623008572 Mg++ binding site [ion binding]; other site 1085623008573 motif III; other site 1085623008574 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 1085623008575 nucleotide binding region [chemical binding]; other site 1085623008576 ATP-binding site [chemical binding]; other site 1085623008577 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 1085623008578 putative RNA binding site [nucleotide binding]; other site 1085623008579 siroheme synthase; Provisional; Region: cysG; PRK10637 1085623008580 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1085623008581 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1085623008582 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1085623008583 active site 1085623008584 SAM binding site [chemical binding]; other site 1085623008585 homodimer interface [polypeptide binding]; other site 1085623008586 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1085623008587 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 1085623008588 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1085623008589 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1085623008590 Amidohydrolase; Region: Amidohydro_5; pfam13594 1085623008591 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; cd01292 1085623008592 active site 1085623008593 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 1085623008594 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1085623008595 HlyD family secretion protein; Region: HlyD_3; pfam13437 1085623008596 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 1085623008597 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_C39C; cd02419 1085623008598 putative active site [active] 1085623008599 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1085623008600 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1085623008601 Walker A/P-loop; other site 1085623008602 ATP binding site [chemical binding]; other site 1085623008603 Q-loop/lid; other site 1085623008604 ABC transporter signature motif; other site 1085623008605 Walker B; other site 1085623008606 D-loop; other site 1085623008607 H-loop/switch region; other site 1085623008608 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1085623008609 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 1085623008610 DNA binding residues [nucleotide binding] 1085623008611 dimerization interface [polypeptide binding]; other site 1085623008612 Family of unknown function (DUF490); Region: DUF490; pfam04357 1085623008613 Family of unknown function (DUF490); Region: DUF490; pfam04357 1085623008614 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1085623008615 Surface antigen; Region: Bac_surface_Ag; pfam01103 1085623008616 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1085623008617 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 1085623008618 Walker A motif; other site 1085623008619 ATP binding site [chemical binding]; other site 1085623008620 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1085623008621 Walker B motif; other site 1085623008622 arginine finger; other site 1085623008623 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1085623008624 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 1085623008625 active site 1085623008626 HslU subunit interaction site [polypeptide binding]; other site 1085623008627 Sporulation related domain; Region: SPOR; pfam05036 1085623008628 primosome assembly protein PriA; Validated; Region: PRK05580 1085623008629 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 1085623008630 ATP binding site [chemical binding]; other site 1085623008631 putative Mg++ binding site [ion binding]; other site 1085623008632 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1085623008633 ATP-binding site [chemical binding]; other site 1085623008634 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1085623008635 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1085623008636 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1085623008637 putative NAD(P) binding site [chemical binding]; other site 1085623008638 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1085623008639 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 1085623008640 catalytic residue [active] 1085623008641 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 1085623008642 catalytic residues [active] 1085623008643 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1085623008644 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1085623008645 peroxiredoxin; Region: AhpC; TIGR03137 1085623008646 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 1085623008647 dimer interface [polypeptide binding]; other site 1085623008648 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1085623008649 catalytic triad [active] 1085623008650 peroxidatic and resolving cysteines [active] 1085623008651 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1085623008652 putative active site [active] 1085623008653 putative metal binding residues [ion binding]; other site 1085623008654 signature motif; other site 1085623008655 putative triphosphate binding site [ion binding]; other site 1085623008656 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1085623008657 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1085623008658 Predicted membrane protein [Function unknown]; Region: COG2860 1085623008659 UPF0126 domain; Region: UPF0126; pfam03458 1085623008660 UPF0126 domain; Region: UPF0126; pfam03458 1085623008661 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 1085623008662 Proline dehydrogenase; Region: Pro_dh; pfam01619 1085623008663 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1085623008664 Glutamate binding site [chemical binding]; other site 1085623008665 NAD binding site [chemical binding]; other site 1085623008666 catalytic residues [active] 1085623008667 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1085623008668 NAD(P) binding site [chemical binding]; other site 1085623008669 TIGR03545 family protein; Region: TIGR03545 1085623008670 Septum formation initiator; Region: DivIC; cl17659 1085623008671 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1085623008672 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1085623008673 substrate binding site; other site 1085623008674 dimer interface; other site 1085623008675 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 1085623008676 homotrimer interaction site [polypeptide binding]; other site 1085623008677 zinc binding site [ion binding]; other site 1085623008678 CDP-binding sites; other site 1085623008679 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 1085623008680 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1085623008681 Permutation of conserved domain; other site 1085623008682 active site 1085623008683 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1085623008684 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1085623008685 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 1085623008686 S-adenosylmethionine binding site [chemical binding]; other site 1085623008687 Predicted membrane protein [Function unknown]; Region: COG1238 1085623008688 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 1085623008689 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1085623008690 Peptidase family M23; Region: Peptidase_M23; pfam01551 1085623008691 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 1085623008692 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1085623008693 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1085623008694 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1085623008695 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 1085623008696 DNA binding residues [nucleotide binding] 1085623008697 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1085623008698 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 1085623008699 folate binding site [chemical binding]; other site 1085623008700 NADP+ binding site [chemical binding]; other site 1085623008701 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1085623008702 GTP1/OBG; Region: GTP1_OBG; pfam01018 1085623008703 Obg GTPase; Region: Obg; cd01898 1085623008704 G1 box; other site 1085623008705 GTP/Mg2+ binding site [chemical binding]; other site 1085623008706 Switch I region; other site 1085623008707 G2 box; other site 1085623008708 G3 box; other site 1085623008709 Switch II region; other site 1085623008710 G4 box; other site 1085623008711 G5 box; other site 1085623008712 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1085623008713 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1085623008714 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1085623008715 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1085623008716 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1085623008717 substrate binding pocket [chemical binding]; other site 1085623008718 chain length determination region; other site 1085623008719 substrate-Mg2+ binding site; other site 1085623008720 catalytic residues [active] 1085623008721 aspartate-rich region 1; other site 1085623008722 active site lid residues [active] 1085623008723 aspartate-rich region 2; other site 1085623008724 proline dipeptidase; Provisional; Region: PRK13607 1085623008725 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 1085623008726 active site 1085623008727 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1085623008728 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 1085623008729 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1085623008730 catalytic residue [active] 1085623008731 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 1085623008732 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 1085623008733 substrate binding site [chemical binding]; other site 1085623008734 oxyanion hole (OAH) forming residues; other site 1085623008735 trimer interface [polypeptide binding]; other site 1085623008736 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1085623008737 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1085623008738 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 1085623008739 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 1085623008740 dimer interface [polypeptide binding]; other site 1085623008741 active site 1085623008742 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1085623008743 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1085623008744 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1085623008745 active site 1085623008746 Uncharacterized protein family (UPF0231); Region: UPF0231; cl11474 1085623008747 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 1085623008748 Nitrate and nitrite sensing; Region: NIT; pfam08376 1085623008749 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1085623008750 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1085623008751 dimer interface [polypeptide binding]; other site 1085623008752 putative CheW interface [polypeptide binding]; other site 1085623008753 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1085623008754 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623008755 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623008756 metal binding site [ion binding]; metal-binding site 1085623008757 active site 1085623008758 I-site; other site 1085623008759 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1085623008760 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1085623008761 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1085623008762 The MopB_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_1; cd02762 1085623008763 putative [Fe4-S4] binding site [ion binding]; other site 1085623008764 putative molybdopterin cofactor binding site [chemical binding]; other site 1085623008765 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 1085623008766 putative molybdopterin cofactor binding site; other site 1085623008767 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 1085623008768 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 1085623008769 ATP binding site [chemical binding]; other site 1085623008770 Mg++ binding site [ion binding]; other site 1085623008771 motif III; other site 1085623008772 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 1085623008773 nucleotide binding region [chemical binding]; other site 1085623008774 ATP-binding site [chemical binding]; other site 1085623008775 TraB family; Region: TraB; pfam01963 1085623008776 Paraquat-inducible protein A; Region: PqiA; pfam04403 1085623008777 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1085623008778 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1085623008779 dimer interface [polypeptide binding]; other site 1085623008780 active site 1085623008781 metal binding site [ion binding]; metal-binding site 1085623008782 glutathione binding site [chemical binding]; other site 1085623008783 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 1085623008784 sensor protein QseC; Provisional; Region: PRK10337 1085623008785 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 1085623008786 dimer interface [polypeptide binding]; other site 1085623008787 phosphorylation site [posttranslational modification] 1085623008788 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 1085623008789 ATP binding site [chemical binding]; other site 1085623008790 Mg2+ binding site [ion binding]; other site 1085623008791 G-X-G motif; other site 1085623008792 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 1085623008793 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623008794 active site 1085623008795 phosphorylation site [posttranslational modification] 1085623008796 intermolecular recognition site; other site 1085623008797 dimerization interface [polypeptide binding]; other site 1085623008798 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 1085623008799 DNA binding site [nucleotide binding] 1085623008800 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1085623008801 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 1085623008802 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 1085623008803 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 1085623008804 FAD binding pocket [chemical binding]; other site 1085623008805 FAD binding motif [chemical binding]; other site 1085623008806 phosphate binding motif [ion binding]; other site 1085623008807 beta-alpha-beta structure motif; other site 1085623008808 NAD binding pocket [chemical binding]; other site 1085623008809 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 1085623008810 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 1085623008811 HlyD family secretion protein; Region: HlyD_3; pfam13437 1085623008812 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1085623008813 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1085623008814 FtsX-like permease family; Region: FtsX; pfam02687 1085623008815 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1085623008816 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1085623008817 FtsX-like permease family; Region: FtsX; pfam02687 1085623008818 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1085623008819 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1085623008820 Walker A/P-loop; other site 1085623008821 ATP binding site [chemical binding]; other site 1085623008822 Q-loop/lid; other site 1085623008823 ABC transporter signature motif; other site 1085623008824 Walker B; other site 1085623008825 D-loop; other site 1085623008826 H-loop/switch region; other site 1085623008827 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1085623008828 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1085623008829 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1085623008830 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1085623008831 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1085623008832 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1085623008833 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 1085623008834 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 1085623008835 homodimer interface [polypeptide binding]; other site 1085623008836 substrate-cofactor binding pocket; other site 1085623008837 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1085623008838 catalytic residue [active] 1085623008839 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 1085623008840 DNA-binding site [nucleotide binding]; DNA binding site 1085623008841 RNA-binding motif; other site 1085623008842 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1085623008843 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1085623008844 putative valine binding site [chemical binding]; other site 1085623008845 dimer interface [polypeptide binding]; other site 1085623008846 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1085623008847 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 1085623008848 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1085623008849 PYR/PP interface [polypeptide binding]; other site 1085623008850 dimer interface [polypeptide binding]; other site 1085623008851 TPP binding site [chemical binding]; other site 1085623008852 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1085623008853 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 1085623008854 TPP-binding site [chemical binding]; other site 1085623008855 dimer interface [polypeptide binding]; other site 1085623008856 Protein of unknown function, DUF; Region: DUF413; pfam04219 1085623008857 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 1085623008858 CoenzymeA binding site [chemical binding]; other site 1085623008859 subunit interaction site [polypeptide binding]; other site 1085623008860 PHB binding site; other site 1085623008861 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1085623008862 catalytic site [active] 1085623008863 putative active site [active] 1085623008864 putative substrate binding site [chemical binding]; other site 1085623008865 dimer interface [polypeptide binding]; other site 1085623008866 GTPase RsgA; Reviewed; Region: PRK12288 1085623008867 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 1085623008868 RNA binding site [nucleotide binding]; other site 1085623008869 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1085623008870 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1085623008871 GTP/Mg2+ binding site [chemical binding]; other site 1085623008872 G4 box; other site 1085623008873 G5 box; other site 1085623008874 G1 box; other site 1085623008875 Switch I region; other site 1085623008876 G2 box; other site 1085623008877 G3 box; other site 1085623008878 Switch II region; other site 1085623008879 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1085623008880 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1085623008881 EamA-like transporter family; Region: EamA; pfam00892 1085623008882 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1085623008883 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 1085623008884 active site 1085623008885 catalytic site [active] 1085623008886 metal binding site [ion binding]; metal-binding site 1085623008887 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 1085623008888 MerC mercury resistance protein; Region: MerC; pfam03203 1085623008889 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1085623008890 putative active site [active] 1085623008891 NodB motif; other site 1085623008892 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 1085623008893 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 1085623008894 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 1085623008895 Anti-sigma-K factor rskA; Region: RskA; pfam10099 1085623008896 RNA polymerase sigma factor; Provisional; Region: PRK12514 1085623008897 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1085623008898 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 1085623008899 DNA binding residues [nucleotide binding] 1085623008900 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 1085623008901 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1085623008902 catalytic residue [active] 1085623008903 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 1085623008904 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 1085623008905 S-adenosylmethionine binding site [chemical binding]; other site 1085623008906 inner membrane transport permease; Provisional; Region: PRK15066 1085623008907 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1085623008908 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1085623008909 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1085623008910 Walker A/P-loop; other site 1085623008911 ATP binding site [chemical binding]; other site 1085623008912 Q-loop/lid; other site 1085623008913 ABC transporter signature motif; other site 1085623008914 Walker B; other site 1085623008915 D-loop; other site 1085623008916 H-loop/switch region; other site 1085623008917 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1085623008918 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 1085623008919 Domain of unknown function DUF21; Region: DUF21; pfam01595 1085623008920 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 1085623008921 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 1085623008922 PAS fold; Region: PAS_4; pfam08448 1085623008923 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 1085623008924 putative active site [active] 1085623008925 heme pocket [chemical binding]; other site 1085623008926 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623008927 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623008928 metal binding site [ion binding]; metal-binding site 1085623008929 active site 1085623008930 I-site; other site 1085623008931 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 1085623008932 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623008933 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623008934 metal binding site [ion binding]; metal-binding site 1085623008935 active site 1085623008936 I-site; other site 1085623008937 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 1085623008938 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1085623008939 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1085623008940 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1085623008941 catalytic site [active] 1085623008942 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1085623008943 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 1085623008944 FAD binding pocket [chemical binding]; other site 1085623008945 FAD binding motif [chemical binding]; other site 1085623008946 phosphate binding motif [ion binding]; other site 1085623008947 beta-alpha-beta structure motif; other site 1085623008948 NAD binding pocket [chemical binding]; other site 1085623008949 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 1085623008950 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 1085623008951 5-histidylcysteine sulfoxide synthase; Region: ovoA_Nterm; TIGR04344 1085623008952 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1085623008953 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1085623008954 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 1085623008955 S-adenosylmethionine binding site [chemical binding]; other site 1085623008956 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1085623008957 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 1085623008958 helicase 45; Provisional; Region: PTZ00424 1085623008959 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 1085623008960 ATP binding site [chemical binding]; other site 1085623008961 Mg++ binding site [ion binding]; other site 1085623008962 motif III; other site 1085623008963 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 1085623008964 nucleotide binding region [chemical binding]; other site 1085623008965 ATP-binding site [chemical binding]; other site 1085623008966 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1085623008967 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1085623008968 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 1085623008969 MoxR-like ATPases [General function prediction only]; Region: COG0714 1085623008970 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 1085623008971 Walker A motif; other site 1085623008972 ATP binding site [chemical binding]; other site 1085623008973 Walker B motif; other site 1085623008974 arginine finger; other site 1085623008975 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1085623008976 Protein of unknown function DUF58; Region: DUF58; pfam01882 1085623008977 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 1085623008978 metal ion-dependent adhesion site (MIDAS); other site 1085623008979 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 1085623008980 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 1085623008981 DNA binding site [nucleotide binding] 1085623008982 Predicted integral membrane protein [Function unknown]; Region: COG5616 1085623008983 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 1085623008984 binding surface 1085623008985 TPR motif; other site 1085623008986 TPR repeat; Region: TPR_11; pfam13414 1085623008987 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 1085623008988 binding surface 1085623008989 TPR motif; other site 1085623008990 TPR repeat; Region: TPR_11; pfam13414 1085623008991 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 1085623008992 binding surface 1085623008993 TPR motif; other site 1085623008994 TPR repeat; Region: TPR_11; pfam13414 1085623008995 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1085623008996 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1085623008997 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1085623008998 Peptidase S8 family domain, uncharacterized subfamily 4; Region: Peptidases_S8_4; cd05561 1085623008999 active site 1085623009000 catalytic triad [active] 1085623009001 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1085623009002 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1085623009003 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 1085623009004 DNA binding residues [nucleotide binding] 1085623009005 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1085623009006 Haemolysin-III related; Region: HlyIII; cl03831 1085623009007 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1085623009008 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 1085623009009 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 1085623009010 ATP binding site [chemical binding]; other site 1085623009011 putative Mg++ binding site [ion binding]; other site 1085623009012 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 1085623009013 nucleotide binding region [chemical binding]; other site 1085623009014 ATP-binding site [chemical binding]; other site 1085623009015 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1085623009016 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 1085623009017 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 1085623009018 Type II transport protein GspH; Region: GspH; pfam12019 1085623009019 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 1085623009020 Fasciclin domain; Region: Fasciclin; pfam02469 1085623009021 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 1085623009022 Fasciclin domain; Region: Fasciclin; pfam02469 1085623009023 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 1085623009024 Fasciclin domain; Region: Fasciclin; pfam02469 1085623009025 Fasciclin domain; Region: Fasciclin; pfam02469 1085623009026 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4315 1085623009027 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1085623009028 Fasciclin domain; Region: Fasciclin; cl02663 1085623009029 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1085623009030 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1085623009031 cyanophycin synthetase; Provisional; Region: PRK14016 1085623009032 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1085623009033 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1085623009034 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1085623009035 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 1085623009036 proposed catalytic triad [active] 1085623009037 active site nucleophile [active] 1085623009038 isoaspartyl dipeptidase; Provisional; Region: PRK10657 1085623009039 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 1085623009040 active site 1085623009041 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1085623009042 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 1085623009043 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1085623009044 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1085623009045 PAS fold; Region: PAS_3; pfam08447 1085623009046 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 1085623009047 PAS fold; Region: PAS_3; pfam08447 1085623009048 putative active site [active] 1085623009049 heme pocket [chemical binding]; other site 1085623009050 GAF domain; Region: GAF; cl17456 1085623009051 GAF domain; Region: GAF_2; pfam13185 1085623009052 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623009053 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623009054 metal binding site [ion binding]; metal-binding site 1085623009055 active site 1085623009056 I-site; other site 1085623009057 elongation factor Tu; Reviewed; Region: PRK00049 1085623009058 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1085623009059 G1 box; other site 1085623009060 GEF interaction site [polypeptide binding]; other site 1085623009061 GTP/Mg2+ binding site [chemical binding]; other site 1085623009062 Switch I region; other site 1085623009063 G2 box; other site 1085623009064 G3 box; other site 1085623009065 Switch II region; other site 1085623009066 G4 box; other site 1085623009067 G5 box; other site 1085623009068 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 1085623009069 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 1085623009070 Antibiotic Binding Site [chemical binding]; other site 1085623009071 elongation factor G; Reviewed; Region: PRK00007 1085623009072 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1085623009073 G1 box; other site 1085623009074 putative GEF interaction site [polypeptide binding]; other site 1085623009075 GTP/Mg2+ binding site [chemical binding]; other site 1085623009076 Switch I region; other site 1085623009077 G2 box; other site 1085623009078 G3 box; other site 1085623009079 Switch II region; other site 1085623009080 G4 box; other site 1085623009081 G5 box; other site 1085623009082 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 1085623009083 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 1085623009084 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 1085623009085 30S ribosomal protein S7; Validated; Region: PRK05302 1085623009086 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 1085623009087 S17 interaction site [polypeptide binding]; other site 1085623009088 S8 interaction site; other site 1085623009089 16S rRNA interaction site [nucleotide binding]; other site 1085623009090 streptomycin interaction site [chemical binding]; other site 1085623009091 23S rRNA interaction site [nucleotide binding]; other site 1085623009092 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1085623009093 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1085623009094 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1085623009095 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1085623009096 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1085623009097 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1085623009098 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1085623009099 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1085623009100 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1085623009101 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1085623009102 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1085623009103 DNA binding site [nucleotide binding] 1085623009104 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1085623009105 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1085623009106 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 1085623009107 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1085623009108 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1085623009109 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 1085623009110 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1085623009111 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 1085623009112 RPB3 interaction site [polypeptide binding]; other site 1085623009113 RPB1 interaction site [polypeptide binding]; other site 1085623009114 RPB11 interaction site [polypeptide binding]; other site 1085623009115 RPB10 interaction site [polypeptide binding]; other site 1085623009116 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 1085623009117 core dimer interface [polypeptide binding]; other site 1085623009118 peripheral dimer interface [polypeptide binding]; other site 1085623009119 L10 interface [polypeptide binding]; other site 1085623009120 L11 interface [polypeptide binding]; other site 1085623009121 putative EF-Tu interaction site [polypeptide binding]; other site 1085623009122 putative EF-G interaction site [polypeptide binding]; other site 1085623009123 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 1085623009124 23S rRNA interface [nucleotide binding]; other site 1085623009125 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1085623009126 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 1085623009127 mRNA/rRNA interface [nucleotide binding]; other site 1085623009128 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1085623009129 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 1085623009130 23S rRNA interface [nucleotide binding]; other site 1085623009131 L7/L12 interface [polypeptide binding]; other site 1085623009132 putative thiostrepton binding site; other site 1085623009133 L25 interface [polypeptide binding]; other site 1085623009134 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 1085623009135 Fasciclin domain; Region: Fasciclin; pfam02469 1085623009136 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1085623009137 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1085623009138 putative homodimer interface [polypeptide binding]; other site 1085623009139 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1085623009140 heterodimer interface [polypeptide binding]; other site 1085623009141 homodimer interface [polypeptide binding]; other site 1085623009142 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1085623009143 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1085623009144 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1085623009145 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1085623009146 Walker A/P-loop; other site 1085623009147 ATP binding site [chemical binding]; other site 1085623009148 Q-loop/lid; other site 1085623009149 ABC transporter signature motif; other site 1085623009150 Walker B; other site 1085623009151 D-loop; other site 1085623009152 H-loop/switch region; other site 1085623009153 MAPEG family; Region: MAPEG; pfam01124 1085623009154 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1085623009155 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1085623009156 active site 1085623009157 Zn binding site [ion binding]; other site 1085623009158 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1085623009159 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1085623009160 Penicillinase repressor; Region: Pencillinase_R; cl17580 1085623009161 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1085623009162 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 1085623009163 N-terminal plug; other site 1085623009164 ligand-binding site [chemical binding]; other site 1085623009165 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 1085623009166 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1085623009167 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 1085623009168 ATP binding site [chemical binding]; other site 1085623009169 Mg++ binding site [ion binding]; other site 1085623009170 motif III; other site 1085623009171 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 1085623009172 nucleotide binding region [chemical binding]; other site 1085623009173 ATP-binding site [chemical binding]; other site 1085623009174 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1085623009175 putative RNA binding site [nucleotide binding]; other site 1085623009176 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 1085623009177 active site 1085623009178 substrate binding pocket [chemical binding]; other site 1085623009179 dimer interface [polypeptide binding]; other site 1085623009180 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1085623009181 putative acyl-acceptor binding pocket; other site 1085623009182 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 1085623009183 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; smart00782 1085623009184 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1085623009185 PhnA protein; Region: PhnA; pfam03831 1085623009186 DinB superfamily; Region: DinB_2; pfam12867 1085623009187 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 1085623009188 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1085623009189 active site 1085623009190 catalytic tetrad [active] 1085623009191 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 1085623009192 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1085623009193 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 1085623009194 active site 1085623009195 catalytic site [active] 1085623009196 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 1085623009197 active site 1085623009198 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1085623009199 GTP cyclohydrolase I; Provisional; Region: PLN03044 1085623009200 active site 1085623009201 dihydromonapterin reductase; Provisional; Region: PRK06483 1085623009202 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1085623009203 NAD(P) binding site [chemical binding]; other site 1085623009204 active site 1085623009205 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1085623009206 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 1085623009207 N-terminal plug; other site 1085623009208 ligand-binding site [chemical binding]; other site 1085623009209 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 1085623009210 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 1085623009211 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 1085623009212 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 1085623009213 putative active site; other site 1085623009214 catalytic triad [active] 1085623009215 putative dimer interface [polypeptide binding]; other site 1085623009216 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 1085623009217 putative active site [active] 1085623009218 putative metal binding site [ion binding]; other site 1085623009219 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 1085623009220 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 1085623009221 ATP binding site [chemical binding]; other site 1085623009222 putative Mg++ binding site [ion binding]; other site 1085623009223 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 1085623009224 nucleotide binding region [chemical binding]; other site 1085623009225 ATP-binding site [chemical binding]; other site 1085623009226 DEAD/H associated; Region: DEAD_assoc; pfam08494 1085623009227 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 1085623009228 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1085623009229 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1085623009230 DNA ligase, ATP-dependent, PP_1105 family; Region: DNA_lig_bact; TIGR04120 1085623009231 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 1085623009232 active site 1085623009233 DNA binding site [nucleotide binding] 1085623009234 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 1085623009235 DNA binding site [nucleotide binding] 1085623009236 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 1085623009237 ArsC family; Region: ArsC; pfam03960 1085623009238 catalytic residues [active] 1085623009239 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1085623009240 Amidase; Region: Amidase; cl11426 1085623009241 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1085623009242 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 1085623009243 heme binding site [chemical binding]; other site 1085623009244 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1085623009245 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1085623009246 Beta-lactamase; Region: Beta-lactamase; pfam00144 1085623009247 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 1085623009248 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 1085623009249 active site 1085623009250 catalytic triad [active] 1085623009251 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 1085623009252 PA/protease or protease-like domain interface [polypeptide binding]; other site 1085623009253 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1085623009254 catalytic residues [active] 1085623009255 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1085623009256 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 1085623009257 POT family; Region: PTR2; cl17359 1085623009258 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1085623009259 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1085623009260 NAD binding site [chemical binding]; other site 1085623009261 substrate binding site [chemical binding]; other site 1085623009262 homodimer interface [polypeptide binding]; other site 1085623009263 active site 1085623009264 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1085623009265 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1085623009266 NADP binding site [chemical binding]; other site 1085623009267 active site 1085623009268 putative substrate binding site [chemical binding]; other site 1085623009269 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 1085623009270 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1085623009271 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1085623009272 substrate binding site; other site 1085623009273 tetramer interface; other site 1085623009274 UDP-glucose 4-epimerase; Region: PLN02240 1085623009275 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1085623009276 NAD binding site [chemical binding]; other site 1085623009277 homodimer interface [polypeptide binding]; other site 1085623009278 active site 1085623009279 substrate binding site [chemical binding]; other site 1085623009280 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 1085623009281 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1085623009282 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1085623009283 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 1085623009284 active site 1085623009285 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1085623009286 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1085623009287 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1085623009288 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1085623009289 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1085623009290 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1085623009291 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1085623009292 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 1085623009293 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1085623009294 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1085623009295 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1085623009296 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1085623009297 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1085623009298 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1085623009299 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 1085623009300 Walker A motif; other site 1085623009301 ATP binding site [chemical binding]; other site 1085623009302 Walker B motif; other site 1085623009303 type II secretion system protein D; Region: type_II_gspD; TIGR02517 1085623009304 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1085623009305 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 1085623009306 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 1085623009307 binding surface 1085623009308 TPR motif; other site 1085623009309 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1085623009310 Rhamnan synthesis protein F; Region: RgpF; pfam05045 1085623009311 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1085623009312 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1085623009313 active site 1085623009314 nucleotide binding site [chemical binding]; other site 1085623009315 HIGH motif; other site 1085623009316 KMSKS motif; other site 1085623009317 LicD family; Region: LicD; pfam04991 1085623009318 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1085623009319 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1085623009320 Probable Catalytic site; other site 1085623009321 metal-binding site 1085623009322 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 1085623009323 SAM (Sterile alpha motif ); Region: SAM_superfamily; cl15755 1085623009324 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1085623009325 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1085623009326 Walker A/P-loop; other site 1085623009327 ATP binding site [chemical binding]; other site 1085623009328 Q-loop/lid; other site 1085623009329 ABC transporter signature motif; other site 1085623009330 Walker B; other site 1085623009331 D-loop; other site 1085623009332 H-loop/switch region; other site 1085623009333 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1085623009334 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1085623009335 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1085623009336 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1085623009337 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 1085623009338 putative C-terminal domain interface [polypeptide binding]; other site 1085623009339 putative GSH binding site (G-site) [chemical binding]; other site 1085623009340 putative dimer interface [polypeptide binding]; other site 1085623009341 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1085623009342 N-terminal domain interface [polypeptide binding]; other site 1085623009343 dimer interface [polypeptide binding]; other site 1085623009344 substrate binding pocket (H-site) [chemical binding]; other site 1085623009345 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1085623009346 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 1085623009347 S-adenosylmethionine binding site [chemical binding]; other site 1085623009348 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 1085623009349 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 1085623009350 ferrochelatase; Reviewed; Region: hemH; PRK00035 1085623009351 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 1085623009352 C-terminal domain interface [polypeptide binding]; other site 1085623009353 active site 1085623009354 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 1085623009355 active site 1085623009356 N-terminal domain interface [polypeptide binding]; other site 1085623009357 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 1085623009358 AbgT putative transporter family; Region: ABG_transport; pfam03806 1085623009359 SF-assemblin/beta giardin; Region: SF-assemblin; pfam06705 1085623009360 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1085623009361 ligand binding site [chemical binding]; other site 1085623009362 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 1085623009363 Ras-related in brain (Rab) family of small guanosine triphosphatases (GTPases); Region: Rab; cd00154 1085623009364 Rab subfamily motif 1 (RabSF1); other site 1085623009365 G1 box; other site 1085623009366 GTP/Mg2+ binding site [chemical binding]; other site 1085623009367 Rab subfamily motif 2 (RabSF2); other site 1085623009368 Switch I region; other site 1085623009369 G2 box; other site 1085623009370 effector interaction site; other site 1085623009371 GDI interaction site; other site 1085623009372 Rab family motif 1 (RabF1); other site 1085623009373 GEF interaction site [polypeptide binding]; other site 1085623009374 Rab family motif 2 (RabF2); other site 1085623009375 G3 box; other site 1085623009376 Switch II region; other site 1085623009377 Rab family motif 3 (RabF3); other site 1085623009378 Rab family motif 4 (RabF4); other site 1085623009379 Rab family motif 5 (RabF5); other site 1085623009380 Rab subfamily motif 3 (RabSF3); other site 1085623009381 G4 box; other site 1085623009382 G5 box; other site 1085623009383 Rab subfamily motif 4 (RabSF4); other site 1085623009384 PAS domain; Region: PAS_9; pfam13426 1085623009385 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623009386 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623009387 metal binding site [ion binding]; metal-binding site 1085623009388 active site 1085623009389 I-site; other site 1085623009390 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 1085623009391 FtsH protease regulator HflC; Provisional; Region: PRK11029 1085623009392 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 1085623009393 FtsH protease regulator HflK; Provisional; Region: PRK10930 1085623009394 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1085623009395 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 1085623009396 GTPase HflX; Provisional; Region: PRK11058 1085623009397 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1085623009398 HflX GTPase family; Region: HflX; cd01878 1085623009399 G1 box; other site 1085623009400 GTP/Mg2+ binding site [chemical binding]; other site 1085623009401 Switch I region; other site 1085623009402 G2 box; other site 1085623009403 G3 box; other site 1085623009404 Switch II region; other site 1085623009405 G4 box; other site 1085623009406 G5 box; other site 1085623009407 bacterial Hfq-like; Region: Hfq; cd01716 1085623009408 hexamer interface [polypeptide binding]; other site 1085623009409 Sm1 motif; other site 1085623009410 RNA binding site [nucleotide binding]; other site 1085623009411 Sm2 motif; other site 1085623009412 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1085623009413 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1085623009414 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 1085623009415 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 1085623009416 ATP binding site [chemical binding]; other site 1085623009417 Mg2+ binding site [ion binding]; other site 1085623009418 G-X-G motif; other site 1085623009419 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 1085623009420 ATP binding site [chemical binding]; other site 1085623009421 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 1085623009422 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1085623009423 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 1085623009424 active site 1085623009425 metal binding site [ion binding]; metal-binding site 1085623009426 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1085623009427 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1085623009428 putative carbohydrate kinase; Provisional; Region: PRK10565 1085623009429 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1085623009430 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 1085623009431 putative substrate binding site [chemical binding]; other site 1085623009432 putative ATP binding site [chemical binding]; other site 1085623009433 epoxyqueuosine reductase; Region: TIGR00276 1085623009434 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1085623009435 4Fe-4S binding domain; Region: Fer4; cl02805 1085623009436 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1085623009437 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 1085623009438 substrate binding site [chemical binding]; other site 1085623009439 active site 1085623009440 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 1085623009441 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1085623009442 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 1085623009443 putative NADH binding site [chemical binding]; other site 1085623009444 putative active site [active] 1085623009445 nudix motif; other site 1085623009446 putative metal binding site [ion binding]; other site 1085623009447 ferric uptake regulator; Provisional; Region: fur; PRK09462 1085623009448 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1085623009449 metal binding site 2 [ion binding]; metal-binding site 1085623009450 putative DNA binding helix; other site 1085623009451 metal binding site 1 [ion binding]; metal-binding site 1085623009452 dimer interface [polypeptide binding]; other site 1085623009453 structural Zn2+ binding site [ion binding]; other site 1085623009454 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1085623009455 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1085623009456 ligand binding site [chemical binding]; other site 1085623009457 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1085623009458 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1085623009459 DNA-binding site [nucleotide binding]; DNA binding site 1085623009460 FCD domain; Region: FCD; pfam07729 1085623009461 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1085623009462 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 1085623009463 tetramer interface [polypeptide binding]; other site 1085623009464 active site 1085623009465 Mg2+/Mn2+ binding site [ion binding]; other site 1085623009466 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1085623009467 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 1085623009468 dimer interface [polypeptide binding]; other site 1085623009469 active site 1085623009470 citrylCoA binding site [chemical binding]; other site 1085623009471 oxalacetate/citrate binding site [chemical binding]; other site 1085623009472 coenzyme A binding site [chemical binding]; other site 1085623009473 catalytic triad [active] 1085623009474 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 1085623009475 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1085623009476 substrate binding site [chemical binding]; other site 1085623009477 ligand binding site [chemical binding]; other site 1085623009478 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 1085623009479 substrate binding site [chemical binding]; other site 1085623009480 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1085623009481 putative S-transferase; Provisional; Region: PRK11752 1085623009482 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 1085623009483 C-terminal domain interface [polypeptide binding]; other site 1085623009484 GSH binding site (G-site) [chemical binding]; other site 1085623009485 dimer interface [polypeptide binding]; other site 1085623009486 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 1085623009487 dimer interface [polypeptide binding]; other site 1085623009488 N-terminal domain interface [polypeptide binding]; other site 1085623009489 active site 1085623009490 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623009491 active site 1085623009492 phosphorylation site [posttranslational modification] 1085623009493 intermolecular recognition site; other site 1085623009494 dimerization interface [polypeptide binding]; other site 1085623009495 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623009496 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623009497 metal binding site [ion binding]; metal-binding site 1085623009498 active site 1085623009499 I-site; other site 1085623009500 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 1085623009501 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1085623009502 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1085623009503 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1085623009504 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 1085623009505 dimer interface [polypeptide binding]; other site 1085623009506 phosphorylation site [posttranslational modification] 1085623009507 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 1085623009508 ATP binding site [chemical binding]; other site 1085623009509 Mg2+ binding site [ion binding]; other site 1085623009510 G-X-G motif; other site 1085623009511 Response regulator receiver domain; Region: Response_reg; pfam00072 1085623009512 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623009513 active site 1085623009514 phosphorylation site [posttranslational modification] 1085623009515 intermolecular recognition site; other site 1085623009516 dimerization interface [polypeptide binding]; other site 1085623009517 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 1085623009518 Peptidase S8 family domain, uncharacterized subfamily 1; Region: Peptidases_S8_1; cd07487 1085623009519 active site 1085623009520 catalytic triad [active] 1085623009521 replicative DNA helicase; Region: DnaB; TIGR00665 1085623009522 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1085623009523 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 1085623009524 Walker A motif; other site 1085623009525 ATP binding site [chemical binding]; other site 1085623009526 Walker B motif; other site 1085623009527 DNA binding loops [nucleotide binding] 1085623009528 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1085623009529 Chromate transporter; Region: Chromate_transp; pfam02417 1085623009530 Chlorophyllase enzyme; Region: Chlorophyllase2; pfam12740 1085623009531 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1085623009532 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1085623009533 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1085623009534 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1085623009535 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 1085623009536 DNA binding residues [nucleotide binding] 1085623009537 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1085623009538 MOSC domain; Region: MOSC; pfam03473 1085623009539 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 1085623009540 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 1085623009541 dimer interface [polypeptide binding]; other site 1085623009542 active site 1085623009543 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1085623009544 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1085623009545 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1085623009546 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1085623009547 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1085623009548 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 1085623009549 putative ligand binding site [chemical binding]; other site 1085623009550 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1085623009551 active site 1085623009552 metal binding site [ion binding]; metal-binding site 1085623009553 Propionate catabolism activator; Region: PrpR_N; pfam06506 1085623009554 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 1085623009555 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1085623009556 Walker A motif; other site 1085623009557 ATP binding site [chemical binding]; other site 1085623009558 Walker B motif; other site 1085623009559 arginine finger; other site 1085623009560 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1085623009561 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1085623009562 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1085623009563 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 1085623009564 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1085623009565 Nucleoside diphosphate kinases (NDP kinases, NDPks): NDP kinases, responsible for the synthesis of nucleoside triphosphates (NTPs), are involved in numerous regulatory processes associated with proliferation, development, and differentiation. They are...; Region: NDPk; cl00335 1085623009566 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1085623009567 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1085623009568 active site 1085623009569 catalytic residues [active] 1085623009570 metal binding site [ion binding]; metal-binding site 1085623009571 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1085623009572 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1085623009573 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1085623009574 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1085623009575 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 1085623009576 Isochorismatase family; Region: Isochorismatase; pfam00857 1085623009577 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 1085623009578 catalytic triad [active] 1085623009579 conserved cis-peptide bond; other site 1085623009580 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1085623009581 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 1085623009582 substrate binding site [chemical binding]; other site 1085623009583 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1085623009584 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1085623009585 substrate binding site [chemical binding]; other site 1085623009586 ligand binding site [chemical binding]; other site 1085623009587 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1085623009588 classical (c) SDRs; Region: SDR_c; cd05233 1085623009589 NAD(P) binding site [chemical binding]; other site 1085623009590 active site 1085623009591 Predicted membrane protein [Function unknown]; Region: COG2311 1085623009592 Protein of unknown function (DUF418); Region: DUF418; cl12135 1085623009593 Protein of unknown function (DUF418); Region: DUF418; pfam04235 1085623009594 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1085623009595 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 1085623009596 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 1085623009597 putative FMN binding site [chemical binding]; other site 1085623009598 putative dimer interface [polypeptide binding]; other site 1085623009599 oxidative damage protection protein; Provisional; Region: PRK05408 1085623009600 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1085623009601 minor groove reading motif; other site 1085623009602 helix-hairpin-helix signature motif; other site 1085623009603 substrate binding pocket [chemical binding]; other site 1085623009604 active site 1085623009605 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1085623009606 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 1085623009607 DNA binding and oxoG recognition site [nucleotide binding] 1085623009608 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 1085623009609 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 1085623009610 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1085623009611 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 1085623009612 S-adenosylmethionine binding site [chemical binding]; other site 1085623009613 glycogen synthase; Provisional; Region: glgA; PRK00654 1085623009614 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 1085623009615 ADP-binding pocket [chemical binding]; other site 1085623009616 homodimer interface [polypeptide binding]; other site 1085623009617 two-component response regulator; Provisional; Region: PRK11173 1085623009618 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623009619 active site 1085623009620 phosphorylation site [posttranslational modification] 1085623009621 intermolecular recognition site; other site 1085623009622 dimerization interface [polypeptide binding]; other site 1085623009623 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 1085623009624 DNA binding site [nucleotide binding] 1085623009625 peptidase PmbA; Provisional; Region: PRK11040 1085623009626 Protein of unknown function (DUF615); Region: DUF615; pfam04751 1085623009627 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1085623009628 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623009629 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623009630 metal binding site [ion binding]; metal-binding site 1085623009631 active site 1085623009632 I-site; other site 1085623009633 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1085623009634 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 1085623009635 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1085623009636 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1085623009637 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1085623009638 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1085623009639 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1085623009640 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1085623009641 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1085623009642 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1085623009643 Ligand binding site; other site 1085623009644 metal-binding site 1085623009645 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 1085623009646 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 1085623009647 catalytic loop [active] 1085623009648 iron binding site [ion binding]; other site 1085623009649 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1085623009650 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1085623009651 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1085623009652 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1085623009653 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1085623009654 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1085623009655 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 1085623009656 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 1085623009657 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1085623009658 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 1085623009659 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1085623009660 active site 1085623009661 oxyanion hole [active] 1085623009662 TPR repeat; Region: TPR_11; pfam13414 1085623009663 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 1085623009664 binding surface 1085623009665 TPR motif; other site 1085623009666 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 1085623009667 active site 1085623009668 catalytic residues [active] 1085623009669 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 1085623009670 Cupin-like domain; Region: Cupin_8; pfam13621 1085623009671 SapC; Region: SapC; pfam07277 1085623009672 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 1085623009673 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1085623009674 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 1085623009675 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1085623009676 MFS/sugar transport protein; Region: MFS_2; pfam13347 1085623009677 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 1085623009678 putative substrate translocation pore; other site 1085623009679 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 1085623009680 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 1085623009681 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 1085623009682 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1085623009683 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1085623009684 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 1085623009685 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 1085623009686 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1085623009687 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1085623009688 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 1085623009689 Sugar-binding cellulase-like; Region: Cellulase-like; pfam12876 1085623009690 Histidine kinase; Region: His_kinase; pfam06580 1085623009691 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 1085623009692 ATP binding site [chemical binding]; other site 1085623009693 Mg2+ binding site [ion binding]; other site 1085623009694 G-X-G motif; other site 1085623009695 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 1085623009696 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623009697 active site 1085623009698 phosphorylation site [posttranslational modification] 1085623009699 intermolecular recognition site; other site 1085623009700 dimerization interface [polypeptide binding]; other site 1085623009701 LytTr DNA-binding domain; Region: LytTR; smart00850 1085623009702 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 1085623009703 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1085623009704 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1085623009705 catalytic residue [active] 1085623009706 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1085623009707 GAF domain; Region: GAF; pfam01590 1085623009708 PAS domain S-box; Region: sensory_box; TIGR00229 1085623009709 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 1085623009710 putative active site [active] 1085623009711 heme pocket [chemical binding]; other site 1085623009712 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623009713 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623009714 metal binding site [ion binding]; metal-binding site 1085623009715 active site 1085623009716 I-site; other site 1085623009717 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 1085623009718 Ecdysteroid kinase; Region: EcKinase; cl17738 1085623009719 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1085623009720 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 1085623009721 dimer interface [polypeptide binding]; other site 1085623009722 active site 1085623009723 heme binding site [chemical binding]; other site 1085623009724 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1085623009725 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 1085623009726 ATP binding site [chemical binding]; other site 1085623009727 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1085623009728 active site 1085623009729 catalytic triad [active] 1085623009730 oxyanion hole [active] 1085623009731 Response regulator receiver domain; Region: Response_reg; pfam00072 1085623009732 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623009733 active site 1085623009734 phosphorylation site [posttranslational modification] 1085623009735 intermolecular recognition site; other site 1085623009736 dimerization interface [polypeptide binding]; other site 1085623009737 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 1085623009738 PAS domain; Region: PAS_9; pfam13426 1085623009739 putative active site [active] 1085623009740 heme pocket [chemical binding]; other site 1085623009741 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623009742 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623009743 metal binding site [ion binding]; metal-binding site 1085623009744 active site 1085623009745 I-site; other site 1085623009746 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 1085623009747 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation," the...; Region: Lipase_3; cd00519 1085623009748 active site flap/lid [active] 1085623009749 nucleophilic elbow; other site 1085623009750 catalytic triad [active] 1085623009751 DNA-J related protein; Region: DNAJ_related; pfam12339 1085623009752 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 1085623009753 HSP70 interaction site [polypeptide binding]; other site 1085623009754 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 1085623009755 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1085623009756 NADP binding site [chemical binding]; other site 1085623009757 dimer interface [polypeptide binding]; other site 1085623009758 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 1085623009759 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 1085623009760 dimer interface [polypeptide binding]; other site 1085623009761 active site 1085623009762 metal binding site [ion binding]; metal-binding site 1085623009763 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1085623009764 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1085623009765 potential catalytic triad [active] 1085623009766 conserved cys residue [active] 1085623009767 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1085623009768 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1085623009769 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 1085623009770 putative effector binding pocket; other site 1085623009771 dimerization interface [polypeptide binding]; other site 1085623009772 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl17217 1085623009773 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 1085623009774 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1085623009775 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 1085623009776 active site 1085623009777 PAS domain S-box; Region: sensory_box; TIGR00229 1085623009778 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 1085623009779 putative active site [active] 1085623009780 heme pocket [chemical binding]; other site 1085623009781 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 1085623009782 PAS domain; Region: PAS_9; pfam13426 1085623009783 putative active site [active] 1085623009784 heme pocket [chemical binding]; other site 1085623009785 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623009786 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623009787 metal binding site [ion binding]; metal-binding site 1085623009788 active site 1085623009789 I-site; other site 1085623009790 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 1085623009791 OmpW family; Region: OmpW; cl17427 1085623009792 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1085623009793 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623009794 active site 1085623009795 phosphorylation site [posttranslational modification] 1085623009796 intermolecular recognition site; other site 1085623009797 dimerization interface [polypeptide binding]; other site 1085623009798 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 1085623009799 DNA binding site [nucleotide binding] 1085623009800 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1085623009801 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 1085623009802 dimerization interface [polypeptide binding]; other site 1085623009803 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 1085623009804 dimer interface [polypeptide binding]; other site 1085623009805 phosphorylation site [posttranslational modification] 1085623009806 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 1085623009807 ATP binding site [chemical binding]; other site 1085623009808 Mg2+ binding site [ion binding]; other site 1085623009809 G-X-G motif; other site 1085623009810 Cation efflux family; Region: Cation_efflux; cl00316 1085623009811 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1085623009812 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1085623009813 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 1085623009814 putative C-terminal domain interface [polypeptide binding]; other site 1085623009815 putative GSH binding site (G-site) [chemical binding]; other site 1085623009816 putative dimer interface [polypeptide binding]; other site 1085623009817 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1085623009818 N-terminal domain interface [polypeptide binding]; other site 1085623009819 dimer interface [polypeptide binding]; other site 1085623009820 substrate binding pocket (H-site) [chemical binding]; other site 1085623009821 YcxB-like protein; Region: YcxB; pfam14317 1085623009822 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 1085623009823 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 1085623009824 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1085623009825 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1085623009826 Walker A/P-loop; other site 1085623009827 ATP binding site [chemical binding]; other site 1085623009828 Q-loop/lid; other site 1085623009829 ABC transporter signature motif; other site 1085623009830 Walker B; other site 1085623009831 D-loop; other site 1085623009832 H-loop/switch region; other site 1085623009833 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 1085623009834 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1085623009835 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1085623009836 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1085623009837 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1085623009838 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1085623009839 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1085623009840 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1085623009841 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1085623009842 Uncharacterized ArCR, COG1888; Region: DUF211; pfam02680 1085623009843 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 1085623009844 Ligand Binding Site [chemical binding]; other site 1085623009845 Cytochrome c; Region: Cytochrom_C; cl11414 1085623009846 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1085623009847 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1085623009848 Beta-Casp domain; Region: Beta-Casp; smart01027 1085623009849 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1085623009850 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 1085623009851 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 1085623009852 HSP70 interaction site [polypeptide binding]; other site 1085623009853 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1085623009854 substrate binding site [polypeptide binding]; other site 1085623009855 dimer interface [polypeptide binding]; other site 1085623009856 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 1085623009857 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 1085623009858 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1085623009859 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 1085623009860 ligand binding site [chemical binding]; other site 1085623009861 flexible hinge region; other site 1085623009862 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 1085623009863 non-specific DNA interactions [nucleotide binding]; other site 1085623009864 DNA binding site [nucleotide binding] 1085623009865 sequence specific DNA binding site [nucleotide binding]; other site 1085623009866 putative cAMP binding site [chemical binding]; other site 1085623009867 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1085623009868 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1085623009869 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 1085623009870 Ligand Binding Site [chemical binding]; other site 1085623009871 transcriptional regulator FixK; Provisional; Region: fixK; PRK09391 1085623009872 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 1085623009873 ligand binding site [chemical binding]; other site 1085623009874 flexible hinge region; other site 1085623009875 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 1085623009876 putative switch regulator; other site 1085623009877 non-specific DNA interactions [nucleotide binding]; other site 1085623009878 DNA binding site [nucleotide binding] 1085623009879 sequence specific DNA binding site [nucleotide binding]; other site 1085623009880 putative cAMP binding site [chemical binding]; other site 1085623009881 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1085623009882 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 1085623009883 putative active site [active] 1085623009884 heme pocket [chemical binding]; other site 1085623009885 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 1085623009886 dimer interface [polypeptide binding]; other site 1085623009887 phosphorylation site [posttranslational modification] 1085623009888 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 1085623009889 ATP binding site [chemical binding]; other site 1085623009890 Mg2+ binding site [ion binding]; other site 1085623009891 G-X-G motif; other site 1085623009892 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1085623009893 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623009894 active site 1085623009895 phosphorylation site [posttranslational modification] 1085623009896 intermolecular recognition site; other site 1085623009897 dimerization interface [polypeptide binding]; other site 1085623009898 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 1085623009899 DNA binding residues [nucleotide binding] 1085623009900 dimerization interface [polypeptide binding]; other site 1085623009901 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 1085623009902 active site 1085623009903 catalytic residues [active] 1085623009904 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1085623009905 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1085623009906 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 1085623009907 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1085623009908 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1085623009909 DsrE/DsrF-like family; Region: DrsE; pfam02635 1085623009910 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 1085623009911 active site 1085623009912 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1085623009913 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 1085623009914 S-adenosylmethionine binding site [chemical binding]; other site 1085623009915 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 1085623009916 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1085623009917 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1085623009918 Walker A/P-loop; other site 1085623009919 ATP binding site [chemical binding]; other site 1085623009920 Q-loop/lid; other site 1085623009921 ABC transporter signature motif; other site 1085623009922 Walker B; other site 1085623009923 D-loop; other site 1085623009924 H-loop/switch region; other site 1085623009925 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1085623009926 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1085623009927 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 1085623009928 active site 1085623009929 substrate-binding site [chemical binding]; other site 1085623009930 metal-binding site [ion binding] 1085623009931 ATP binding site [chemical binding]; other site 1085623009932 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623009933 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623009934 metal binding site [ion binding]; metal-binding site 1085623009935 active site 1085623009936 I-site; other site 1085623009937 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623009938 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623009939 metal binding site [ion binding]; metal-binding site 1085623009940 active site 1085623009941 I-site; other site 1085623009942 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 1085623009943 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1085623009944 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1085623009945 active site 1085623009946 Response regulator receiver domain; Region: Response_reg; pfam00072 1085623009947 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623009948 active site 1085623009949 phosphorylation site [posttranslational modification] 1085623009950 intermolecular recognition site; other site 1085623009951 dimerization interface [polypeptide binding]; other site 1085623009952 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 1085623009953 Response regulator receiver domain; Region: Response_reg; pfam00072 1085623009954 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623009955 active site 1085623009956 phosphorylation site [posttranslational modification] 1085623009957 intermolecular recognition site; other site 1085623009958 dimerization interface [polypeptide binding]; other site 1085623009959 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1085623009960 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 1085623009961 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1085623009962 catalytic residues [active] 1085623009963 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1085623009964 G1 box; other site 1085623009965 GTP/Mg2+ binding site [chemical binding]; other site 1085623009966 G2 box; other site 1085623009967 Switch I region; other site 1085623009968 G3 box; other site 1085623009969 Switch II region; other site 1085623009970 G4 box; other site 1085623009971 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 1085623009972 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1085623009973 substrate binding pocket [chemical binding]; other site 1085623009974 membrane-bound complex binding site; other site 1085623009975 hinge residues; other site 1085623009976 choline dehydrogenase; Validated; Region: PRK02106 1085623009977 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1085623009978 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 1085623009979 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1085623009980 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 1085623009981 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1085623009982 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 1085623009983 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 1085623009984 active site residues [active] 1085623009985 dimer interface [polypeptide binding]; other site 1085623009986 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 1085623009987 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1085623009988 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1085623009989 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 1085623009990 active site 1085623009991 catalytic residues [active] 1085623009992 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 1085623009993 PA/protease or protease-like domain interface [polypeptide binding]; other site 1085623009994 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1085623009995 catalytic residues [active] 1085623009996 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 1085623009997 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1085623009998 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 1085623009999 dimerization interface [polypeptide binding]; other site 1085623010000 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1085623010001 dimer interface [polypeptide binding]; other site 1085623010002 putative CheW interface [polypeptide binding]; other site 1085623010003 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 1085623010004 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 1085623010005 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1085623010006 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 1085623010007 dimerization interface [polypeptide binding]; other site 1085623010008 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 1085623010009 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 1085623010010 putative dimer interface [polypeptide binding]; other site 1085623010011 [2Fe-2S] cluster binding site [ion binding]; other site 1085623010012 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 1085623010013 putative dimer interface [polypeptide binding]; other site 1085623010014 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1085623010015 SLBB domain; Region: SLBB; pfam10531 1085623010016 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1085623010017 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 1085623010018 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 1085623010019 catalytic loop [active] 1085623010020 iron binding site [ion binding]; other site 1085623010021 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1085623010022 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 1085623010023 [4Fe-4S] binding site [ion binding]; other site 1085623010024 molybdopterin cofactor binding site; other site 1085623010025 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 1085623010026 molybdopterin cofactor binding site; other site 1085623010027 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1085623010028 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 1085623010029 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1085623010030 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 1085623010031 FeS/SAM binding site; other site 1085623010032 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1085623010033 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623010034 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623010035 metal binding site [ion binding]; metal-binding site 1085623010036 active site 1085623010037 I-site; other site 1085623010038 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1085623010039 Helix-turn-helix domain; Region: HTH_18; pfam12833 1085623010040 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1085623010041 Coenzyme A binding pocket [chemical binding]; other site 1085623010042 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 1085623010043 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 1085623010044 active site 1085623010045 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1085623010046 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 1085623010047 glutaminase active site [active] 1085623010048 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 1085623010049 dimer interface [polypeptide binding]; other site 1085623010050 active site 1085623010051 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 1085623010052 dimer interface [polypeptide binding]; other site 1085623010053 active site 1085623010054 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1085623010055 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1085623010056 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1085623010057 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 1085623010058 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1085623010059 Substrate binding site; other site 1085623010060 Mg++ binding site; other site 1085623010061 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 1085623010062 active site 1085623010063 substrate binding site [chemical binding]; other site 1085623010064 CoA binding site [chemical binding]; other site 1085623010065 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1085623010066 EamA-like transporter family; Region: EamA; pfam00892 1085623010067 EamA-like transporter family; Region: EamA; pfam00892 1085623010068 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 1085623010069 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 1085623010070 DNA binding site [nucleotide binding] 1085623010071 active site 1085623010072 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1085623010073 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 1085623010074 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1085623010075 AlkA N-terminal domain; Region: AlkA_N; pfam06029 1085623010076 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 1085623010077 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1085623010078 minor groove reading motif; other site 1085623010079 helix-hairpin-helix signature motif; other site 1085623010080 Beta-lactamase; Region: Beta-lactamase; pfam00144 1085623010081 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1085623010082 arginine decarboxylase; Provisional; Region: PRK05354 1085623010083 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1085623010084 dimer interface [polypeptide binding]; other site 1085623010085 active site 1085623010086 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1085623010087 catalytic residues [active] 1085623010088 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1085623010089 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1085623010090 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623010091 active site 1085623010092 phosphorylation site [posttranslational modification] 1085623010093 intermolecular recognition site; other site 1085623010094 dimerization interface [polypeptide binding]; other site 1085623010095 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623010096 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623010097 metal binding site [ion binding]; metal-binding site 1085623010098 active site 1085623010099 I-site; other site 1085623010100 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 1085623010101 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1085623010102 catalytic residue [active] 1085623010103 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1085623010104 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 1085623010105 ATP binding site [chemical binding]; other site 1085623010106 substrate interface [chemical binding]; other site 1085623010107 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 1085623010108 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 1085623010109 dimer interface [polypeptide binding]; other site 1085623010110 putative functional site; other site 1085623010111 putative MPT binding site; other site 1085623010112 NMT1/THI5 like; Region: NMT1; pfam09084 1085623010113 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1085623010114 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1085623010115 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 1085623010116 dimer interface [polypeptide binding]; other site 1085623010117 phosphorylation site [posttranslational modification] 1085623010118 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 1085623010119 ATP binding site [chemical binding]; other site 1085623010120 Mg2+ binding site [ion binding]; other site 1085623010121 G-X-G motif; other site 1085623010122 Response regulator receiver domain; Region: Response_reg; pfam00072 1085623010123 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623010124 active site 1085623010125 phosphorylation site [posttranslational modification] 1085623010126 intermolecular recognition site; other site 1085623010127 dimerization interface [polypeptide binding]; other site 1085623010128 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1085623010129 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1085623010130 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 1085623010131 acyl-activating enzyme (AAE) consensus motif; other site 1085623010132 putative AMP binding site [chemical binding]; other site 1085623010133 putative active site [active] 1085623010134 putative CoA binding site [chemical binding]; other site 1085623010135 HAMP domain; Region: HAMP; pfam00672 1085623010136 dimerization interface [polypeptide binding]; other site 1085623010137 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1085623010138 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1085623010139 dimer interface [polypeptide binding]; other site 1085623010140 putative CheW interface [polypeptide binding]; other site 1085623010141 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1085623010142 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1085623010143 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1085623010144 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 1085623010145 putative active site [active] 1085623010146 heme pocket [chemical binding]; other site 1085623010147 PAS fold; Region: PAS_4; pfam08448 1085623010148 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623010149 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623010150 metal binding site [ion binding]; metal-binding site 1085623010151 active site 1085623010152 I-site; other site 1085623010153 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 1085623010154 PAS domain S-box; Region: sensory_box; TIGR00229 1085623010155 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 1085623010156 putative active site [active] 1085623010157 heme pocket [chemical binding]; other site 1085623010158 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 1085623010159 PAS fold; Region: PAS_3; pfam08447 1085623010160 putative active site [active] 1085623010161 heme pocket [chemical binding]; other site 1085623010162 PAS domain S-box; Region: sensory_box; TIGR00229 1085623010163 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 1085623010164 putative active site [active] 1085623010165 heme pocket [chemical binding]; other site 1085623010166 PAS domain S-box; Region: sensory_box; TIGR00229 1085623010167 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 1085623010168 putative active site [active] 1085623010169 heme pocket [chemical binding]; other site 1085623010170 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 1085623010171 dimer interface [polypeptide binding]; other site 1085623010172 phosphorylation site [posttranslational modification] 1085623010173 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 1085623010174 ATP binding site [chemical binding]; other site 1085623010175 Mg2+ binding site [ion binding]; other site 1085623010176 G-X-G motif; other site 1085623010177 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623010178 Response regulator receiver domain; Region: Response_reg; pfam00072 1085623010179 active site 1085623010180 phosphorylation site [posttranslational modification] 1085623010181 intermolecular recognition site; other site 1085623010182 dimerization interface [polypeptide binding]; other site 1085623010183 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1085623010184 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623010185 active site 1085623010186 phosphorylation site [posttranslational modification] 1085623010187 intermolecular recognition site; other site 1085623010188 dimerization interface [polypeptide binding]; other site 1085623010189 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623010190 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623010191 metal binding site [ion binding]; metal-binding site 1085623010192 active site 1085623010193 I-site; other site 1085623010194 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 1085623010195 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1085623010196 core domain interface [polypeptide binding]; other site 1085623010197 delta subunit interface [polypeptide binding]; other site 1085623010198 epsilon subunit interface [polypeptide binding]; other site 1085623010199 alternate F1F0 ATPase, F1 subunit alpha; Region: alt_F1F0_F1_al; TIGR03324 1085623010200 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1085623010201 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 1085623010202 Walker A motif; other site 1085623010203 ATP binding site [chemical binding]; other site 1085623010204 Walker B motif; other site 1085623010205 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1085623010206 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1085623010207 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 1085623010208 alternate F1F0 ATPase, F0 subunit C; Region: alt_F1F0_F0_C; TIGR03322 1085623010209 ATP synthase A chain; Region: ATP-synt_A; cl00413 1085623010210 N-ATPase, AtpR subunit; Region: AtpR; pfam12966 1085623010211 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 1085623010212 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cl10033 1085623010213 gamma subunit interface [polypeptide binding]; other site 1085623010214 epsilon subunit interface [polypeptide binding]; other site 1085623010215 alternate F1F0 ATPase, F1 subunit beta; Region: alt_F1F0_F1_bet; TIGR03305 1085623010216 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1085623010217 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 1085623010218 alpha subunit interaction interface [polypeptide binding]; other site 1085623010219 Walker A motif; other site 1085623010220 ATP binding site [chemical binding]; other site 1085623010221 Walker B motif; other site 1085623010222 inhibitor binding site; inhibition site 1085623010223 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1085623010224 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 1085623010225 Ligand Binding Site [chemical binding]; other site 1085623010226 Putative glucoamylase; Region: Glycoamylase; pfam10091 1085623010227 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 1085623010228 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1085623010229 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 1085623010230 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1085623010231 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 1085623010232 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1085623010233 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 1085623010234 PAS domain; Region: PAS_9; pfam13426 1085623010235 putative active site [active] 1085623010236 heme pocket [chemical binding]; other site 1085623010237 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623010238 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623010239 metal binding site [ion binding]; metal-binding site 1085623010240 active site 1085623010241 I-site; other site 1085623010242 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 1085623010243 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1085623010244 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1085623010245 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 1085623010246 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1085623010247 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1085623010248 Protein export membrane protein; Region: SecD_SecF; cl14618 1085623010249 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1085623010250 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1085623010251 HlyD family secretion protein; Region: HlyD_3; pfam13437 1085623010252 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 1085623010253 Predicted permeases [General function prediction only]; Region: COG0701 1085623010254 N-glycosylase/DNA lyase; Provisional; Region: PRK01229 1085623010255 hyperosmolarity resistance protein Ebh, N-terminal domain; Region: hyperosmo_Ebh; TIGR04264 1085623010256 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1085623010257 active site 1085623010258 catalytic residues [active] 1085623010259 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1085623010260 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 1085623010261 FtsX-like permease family; Region: FtsX; pfam02687 1085623010262 FtsX-like permease family; Region: FtsX; pfam02687 1085623010263 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1085623010264 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1085623010265 Walker A/P-loop; other site 1085623010266 ATP binding site [chemical binding]; other site 1085623010267 Q-loop/lid; other site 1085623010268 ABC transporter signature motif; other site 1085623010269 Walker B; other site 1085623010270 D-loop; other site 1085623010271 H-loop/switch region; other site 1085623010272 HlyD family secretion protein; Region: HlyD_2; pfam12700 1085623010273 HlyD family secretion protein; Region: HlyD_3; pfam13437 1085623010274 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1085623010275 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623010276 active site 1085623010277 phosphorylation site [posttranslational modification] 1085623010278 intermolecular recognition site; other site 1085623010279 dimerization interface [polypeptide binding]; other site 1085623010280 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 1085623010281 Walker A motif; other site 1085623010282 ATP binding site [chemical binding]; other site 1085623010283 Walker B motif; other site 1085623010284 arginine finger; other site 1085623010285 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1085623010286 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 1085623010287 ATP binding site [chemical binding]; other site 1085623010288 Mg2+ binding site [ion binding]; other site 1085623010289 G-X-G motif; other site 1085623010290 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1085623010291 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 1085623010292 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1085623010293 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1085623010294 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1085623010295 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1085623010296 DNA binding residues [nucleotide binding] 1085623010297 dimer interface [polypeptide binding]; other site 1085623010298 putative metal binding site [ion binding]; other site 1085623010299 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 1085623010300 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1085623010301 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1085623010302 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1085623010303 putative NAD(P) binding site [chemical binding]; other site 1085623010304 putative substrate binding site [chemical binding]; other site 1085623010305 catalytic Zn binding site [ion binding]; other site 1085623010306 structural Zn binding site [ion binding]; other site 1085623010307 dimer interface [polypeptide binding]; other site 1085623010308 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 1085623010309 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1085623010310 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1085623010311 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1085623010312 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1085623010313 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1085623010314 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1085623010315 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1085623010316 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1085623010317 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 1085623010318 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 1085623010319 NAD(P) binding site [chemical binding]; other site 1085623010320 catalytic residues [active] 1085623010321 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 1085623010322 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1085623010323 acyl-activating enzyme (AAE) consensus motif; other site 1085623010324 putative AMP binding site [chemical binding]; other site 1085623010325 putative active site [active] 1085623010326 putative CoA binding site [chemical binding]; other site 1085623010327 choline dehydrogenase; Validated; Region: PRK02106 1085623010328 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1085623010329 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 1085623010330 DNA-binding site [nucleotide binding]; DNA binding site 1085623010331 RNA-binding motif; other site 1085623010332 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 1085623010333 PAS domain; Region: PAS_9; pfam13426 1085623010334 putative active site [active] 1085623010335 heme pocket [chemical binding]; other site 1085623010336 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623010337 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623010338 metal binding site [ion binding]; metal-binding site 1085623010339 active site 1085623010340 I-site; other site 1085623010341 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1085623010342 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1085623010343 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 1085623010344 2-methylcitrate dehydratase; Region: prpD; TIGR02330 1085623010345 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1085623010346 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623010347 active site 1085623010348 phosphorylation site [posttranslational modification] 1085623010349 intermolecular recognition site; other site 1085623010350 dimerization interface [polypeptide binding]; other site 1085623010351 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 1085623010352 DNA binding residues [nucleotide binding] 1085623010353 dimerization interface [polypeptide binding]; other site 1085623010354 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 1085623010355 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 1085623010356 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1085623010357 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 1085623010358 (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 1085623010359 dimer interaction site [polypeptide binding]; other site 1085623010360 substrate-binding tunnel; other site 1085623010361 active site 1085623010362 catalytic site [active] 1085623010363 substrate binding site [chemical binding]; other site 1085623010364 phosphate acetyltransferase; Provisional; Region: PRK11890 1085623010365 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 1085623010366 propionate/acetate kinase; Provisional; Region: PRK12379 1085623010367 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1085623010368 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 1085623010369 PAS fold; Region: PAS_3; pfam08447 1085623010370 putative active site [active] 1085623010371 heme pocket [chemical binding]; other site 1085623010372 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1085623010373 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 1085623010374 putative active site [active] 1085623010375 heme pocket [chemical binding]; other site 1085623010376 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 1085623010377 dimer interface [polypeptide binding]; other site 1085623010378 phosphorylation site [posttranslational modification] 1085623010379 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 1085623010380 ATP binding site [chemical binding]; other site 1085623010381 Mg2+ binding site [ion binding]; other site 1085623010382 G-X-G motif; other site 1085623010383 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1085623010384 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 1085623010385 ATP binding site [chemical binding]; other site 1085623010386 putative Mg++ binding site [ion binding]; other site 1085623010387 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 1085623010388 nucleotide binding region [chemical binding]; other site 1085623010389 ATP-binding site [chemical binding]; other site 1085623010390 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1085623010391 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 1085623010392 active site 1085623010393 FMN binding site [chemical binding]; other site 1085623010394 substrate binding site [chemical binding]; other site 1085623010395 putative catalytic residue [active] 1085623010396 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1085623010397 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1085623010398 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1085623010399 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1085623010400 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 1085623010401 active site 1085623010402 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1085623010403 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 1085623010404 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1085623010405 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1085623010406 Walker A/P-loop; other site 1085623010407 ATP binding site [chemical binding]; other site 1085623010408 Q-loop/lid; other site 1085623010409 ABC transporter signature motif; other site 1085623010410 Walker B; other site 1085623010411 D-loop; other site 1085623010412 H-loop/switch region; other site 1085623010413 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1085623010414 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 1085623010415 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1085623010416 metal-binding site [ion binding] 1085623010417 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1085623010418 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1085623010419 Predicted membrane protein [Function unknown]; Region: COG1971 1085623010420 Domain of unknown function DUF; Region: DUF204; pfam02659 1085623010421 Domain of unknown function DUF; Region: DUF204; pfam02659 1085623010422 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 1085623010423 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1085623010424 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1085623010425 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 1085623010426 hypothetical protein; Provisional; Region: PRK14812 1085623010427 substrate binding site [chemical binding]; other site 1085623010428 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1085623010429 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1085623010430 substrate binding site [chemical binding]; other site 1085623010431 ligand binding site [chemical binding]; other site 1085623010432 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 1085623010433 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1085623010434 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 1085623010435 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1085623010436 active site 1085623010437 oxalacetate binding site [chemical binding]; other site 1085623010438 citrylCoA binding site [chemical binding]; other site 1085623010439 coenzyme A binding site [chemical binding]; other site 1085623010440 catalytic triad [active] 1085623010441 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1085623010442 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1085623010443 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1085623010444 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1085623010445 Bacterial transcriptional regulator; Region: IclR; pfam01614 1085623010446 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1085623010447 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 1085623010448 N-terminal plug; other site 1085623010449 ligand-binding site [chemical binding]; other site 1085623010450 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1085623010451 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 1085623010452 Zn binding site [ion binding]; other site 1085623010453 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1085623010454 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 1085623010455 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1085623010456 active site 1085623010457 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 1085623010458 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1085623010459 Beta-lactamase; Region: Beta-lactamase; pfam00144 1085623010460 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1085623010461 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 1085623010462 substrate binding pocket [chemical binding]; other site 1085623010463 membrane-bound complex binding site; other site 1085623010464 hinge residues; other site 1085623010465 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623010466 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623010467 metal binding site [ion binding]; metal-binding site 1085623010468 active site 1085623010469 I-site; other site 1085623010470 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1085623010471 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 1085623010472 ring oligomerisation interface [polypeptide binding]; other site 1085623010473 ATP/Mg binding site [chemical binding]; other site 1085623010474 stacking interactions; other site 1085623010475 hinge regions; other site 1085623010476 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 1085623010477 oligomerisation interface [polypeptide binding]; other site 1085623010478 mobile loop; other site 1085623010479 roof hairpin; other site 1085623010480 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 1085623010481 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1085623010482 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1085623010483 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1085623010484 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1085623010485 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 1085623010486 DsbD alpha interface [polypeptide binding]; other site 1085623010487 catalytic residues [active] 1085623010488 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 1085623010489 anti sigma factor interaction site; other site 1085623010490 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1085623010491 regulatory phosphorylation site [posttranslational modification]; other site 1085623010492 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623010493 active site 1085623010494 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 1085623010495 phosphorylation site [posttranslational modification] 1085623010496 intermolecular recognition site; other site 1085623010497 dimerization interface [polypeptide binding]; other site 1085623010498 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623010499 active site 1085623010500 phosphorylation site [posttranslational modification] 1085623010501 intermolecular recognition site; other site 1085623010502 dimerization interface [polypeptide binding]; other site 1085623010503 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623010504 metal binding site [ion binding]; metal-binding site 1085623010505 active site 1085623010506 I-site; other site 1085623010507 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 1085623010508 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1085623010509 active site 1085623010510 trimer interface [polypeptide binding]; other site 1085623010511 dimer interface [polypeptide binding]; other site 1085623010512 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1085623010513 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 1085623010514 carboxyltransferase (CT) interaction site; other site 1085623010515 biotinylation site [posttranslational modification]; other site 1085623010516 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1085623010517 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1085623010518 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1085623010519 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1085623010520 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1085623010521 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 1085623010522 S-adenosylmethionine binding site [chemical binding]; other site 1085623010523 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 1085623010524 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 1085623010525 FMN binding site [chemical binding]; other site 1085623010526 active site 1085623010527 catalytic residues [active] 1085623010528 substrate binding site [chemical binding]; other site 1085623010529 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1085623010530 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 1085623010531 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1085623010532 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 1085623010533 purine monophosphate binding site [chemical binding]; other site 1085623010534 dimer interface [polypeptide binding]; other site 1085623010535 putative catalytic residues [active] 1085623010536 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1085623010537 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1085623010538 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1085623010539 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1085623010540 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1085623010541 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1085623010542 phosphoribulokinase; Provisional; Region: PRK15453 1085623010543 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1085623010544 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623010545 active site 1085623010546 phosphorylation site [posttranslational modification] 1085623010547 intermolecular recognition site; other site 1085623010548 dimerization interface [polypeptide binding]; other site 1085623010549 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 1085623010550 DNA binding site [nucleotide binding] 1085623010551 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1085623010552 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 1085623010553 dimerization interface [polypeptide binding]; other site 1085623010554 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 1085623010555 dimer interface [polypeptide binding]; other site 1085623010556 phosphorylation site [posttranslational modification] 1085623010557 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 1085623010558 ATP binding site [chemical binding]; other site 1085623010559 Mg2+ binding site [ion binding]; other site 1085623010560 G-X-G motif; other site 1085623010561 Protein of unknown function (DUF808); Region: DUF808; pfam05661 1085623010562 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1085623010563 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 1085623010564 dimerization interface [polypeptide binding]; other site 1085623010565 domain crossover interface; other site 1085623010566 redox-dependent activation switch; other site 1085623010567 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 1085623010568 RNA binding surface [nucleotide binding]; other site 1085623010569 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 1085623010570 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1085623010571 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 1085623010572 type II secretion system protein D; Region: type_II_gspD; TIGR02517 1085623010573 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1085623010574 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1085623010575 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1085623010576 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1085623010577 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1085623010578 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 1085623010579 Walker A motif; other site 1085623010580 ATP binding site [chemical binding]; other site 1085623010581 Walker B motif; other site 1085623010582 type II secretion system protein F; Region: GspF; TIGR02120 1085623010583 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1085623010584 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1085623010585 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1085623010586 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1085623010587 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1085623010588 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1085623010589 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1085623010590 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1085623010591 type II secretion system protein I; Region: gspI; TIGR01707 1085623010592 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 1085623010593 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1085623010594 type II secretion system protein J; Region: gspJ; TIGR01711 1085623010595 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 1085623010596 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1085623010597 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 1085623010598 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 1085623010599 GspL periplasmic domain; Region: GspL_C; cl14909 1085623010600 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 1085623010601 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 1085623010602 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1085623010603 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623010604 active site 1085623010605 phosphorylation site [posttranslational modification] 1085623010606 intermolecular recognition site; other site 1085623010607 dimerization interface [polypeptide binding]; other site 1085623010608 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623010609 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623010610 metal binding site [ion binding]; metal-binding site 1085623010611 active site 1085623010612 I-site; other site 1085623010613 Protein of unknown function DUF84; Region: NTPase_I-T; cl00866 1085623010614 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 1085623010615 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 1085623010616 motif II; other site 1085623010617 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1085623010618 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 1085623010619 dimer interface [polypeptide binding]; other site 1085623010620 ADP-ribose binding site [chemical binding]; other site 1085623010621 active site 1085623010622 nudix motif; other site 1085623010623 metal binding site [ion binding]; metal-binding site 1085623010624 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1085623010625 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 1085623010626 active site 1085623010627 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1085623010628 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 1085623010629 catalytic loop [active] 1085623010630 iron binding site [ion binding]; other site 1085623010631 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 1085623010632 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1085623010633 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 1085623010634 HlyD family secretion protein; Region: HlyD_3; pfam13437 1085623010635 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1085623010636 Outer membrane efflux protein; Region: OEP; pfam02321 1085623010637 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 1085623010638 Outer membrane efflux protein; Region: OEP; pfam02321 1085623010639 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1085623010640 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1085623010641 NAD(P) binding site [chemical binding]; other site 1085623010642 active site 1085623010643 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 1085623010644 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 1085623010645 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1085623010646 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 1085623010647 Ligand binding site; other site 1085623010648 DXD motif; other site 1085623010649 YceI-like domain; Region: YceI; pfam04264 1085623010650 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1085623010651 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1085623010652 active site 1085623010653 nucleophile elbow; other site 1085623010654 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1085623010655 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623010656 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623010657 metal binding site [ion binding]; metal-binding site 1085623010658 active site 1085623010659 I-site; other site 1085623010660 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 1085623010661 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1085623010662 putative substrate translocation pore; other site 1085623010663 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 1085623010664 Uncharacterized protein family (UPF0270); Region: UPF0270; pfam06794 1085623010665 putative hydrolase; Provisional; Region: PRK10985 1085623010666 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1085623010667 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1085623010668 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1085623010669 ABC transporter; Region: ABC_tran_2; pfam12848 1085623010670 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1085623010671 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 1085623010672 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1085623010673 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 1085623010674 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1085623010675 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 1085623010676 active site 1085623010677 SlyX; Region: SlyX; pfam04102 1085623010678 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1085623010679 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1085623010680 structural tetrad; other site 1085623010681 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1085623010682 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1085623010683 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1085623010684 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl17217 1085623010685 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 1085623010686 sequence-specific DNA binding site [nucleotide binding]; other site 1085623010687 salt bridge; other site 1085623010688 Domain of unknown function (DUF955); Region: DUF955; cl01076 1085623010689 Protein of unknown function (DUF3612); Region: DUF3612; pfam12268 1085623010690 Protein of unknown function (DUF502); Region: DUF502; cl01107 1085623010691 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1085623010692 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1085623010693 Predicted small secreted protein [Function unknown]; Region: COG5510 1085623010694 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1085623010695 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1085623010696 Predicted membrane protein [Function unknown]; Region: COG4325 1085623010697 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 1085623010698 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 1085623010699 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1085623010700 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623010701 active site 1085623010702 phosphorylation site [posttranslational modification] 1085623010703 intermolecular recognition site; other site 1085623010704 dimerization interface [polypeptide binding]; other site 1085623010705 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 1085623010706 Walker A motif; other site 1085623010707 ATP binding site [chemical binding]; other site 1085623010708 Walker B motif; other site 1085623010709 arginine finger; other site 1085623010710 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1085623010711 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 1085623010712 phosphorylation site [posttranslational modification] 1085623010713 dimer interface [polypeptide binding]; other site 1085623010714 CHASE3 domain; Region: CHASE3; pfam05227 1085623010715 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 1085623010716 dimer interface [polypeptide binding]; other site 1085623010717 phosphorylation site [posttranslational modification] 1085623010718 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 1085623010719 ATP binding site [chemical binding]; other site 1085623010720 Mg2+ binding site [ion binding]; other site 1085623010721 G-X-G motif; other site 1085623010722 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1085623010723 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623010724 active site 1085623010725 phosphorylation site [posttranslational modification] 1085623010726 intermolecular recognition site; other site 1085623010727 dimerization interface [polypeptide binding]; other site 1085623010728 glutamate dehydrogenase; Provisional; Region: PRK09414 1085623010729 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1085623010730 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1085623010731 NAD(P) binding pocket [chemical binding]; other site 1085623010732 Hemerythrin-like domain; Region: Hr-like; cd12108 1085623010733 Fe binding site [ion binding]; other site 1085623010734 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 1085623010735 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 1085623010736 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1085623010737 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1085623010738 active site 1085623010739 BON domain; Region: BON; pfam04972 1085623010740 BON domain; Region: BON; pfam04972 1085623010741 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1085623010742 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1085623010743 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1085623010744 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1085623010745 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1085623010746 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1085623010747 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 1085623010748 RNA binding site [nucleotide binding]; other site 1085623010749 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 1085623010750 Cupin-like domain; Region: Cupin_8; pfam13621 1085623010751 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1085623010752 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1085623010753 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 1085623010754 putative substrate translocation pore; other site 1085623010755 AAA domain; Region: AAA_17; pfam13207 1085623010756 AAA domain; Region: AAA_18; pfam13238 1085623010757 PAS domain S-box; Region: sensory_box; TIGR00229 1085623010758 PAS domain; Region: PAS; smart00091 1085623010759 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1085623010760 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1085623010761 metal binding site [ion binding]; metal-binding site 1085623010762 active site 1085623010763 I-site; other site 1085623010764 PBP superfamily domain; Region: PBP_like_2; cl17296 1085623010765 SprA-related family; Region: SprA-related; pfam12118 1085623010766 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 1085623010767 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1085623010768 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1085623010769 active site 1085623010770 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 1085623010771 putative active site [active] 1085623010772 Zn binding site [ion binding]; other site 1085623010773 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 1085623010774 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1085623010775 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1085623010776 rhombotail lipoprotein; Region: rhombo_lipo; TIGR04179 1085623010777 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1085623010778 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 1085623010779 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1085623010780 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 1085623010781 putative active site [active] 1085623010782 putative metal binding site [ion binding]; other site 1085623010783 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1085623010784 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1085623010785 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 1085623010786 Cu(I) binding site [ion binding]; other site 1085623010787 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1085623010788 UbiA prenyltransferase family; Region: UbiA; pfam01040 1085623010789 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1085623010790 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1085623010791 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 1085623010792 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 1085623010793 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 1085623010794 Subunit III/VIIa interface [polypeptide binding]; other site 1085623010795 Phospholipid binding site [chemical binding]; other site 1085623010796 Subunit I/III interface [polypeptide binding]; other site 1085623010797 Subunit III/VIb interface [polypeptide binding]; other site 1085623010798 Subunit III/VIa interface; other site 1085623010799 Subunit III/Vb interface [polypeptide binding]; other site 1085623010800 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 1085623010801 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1085623010802 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 1085623010803 Subunit I/III interface [polypeptide binding]; other site 1085623010804 D-pathway; other site 1085623010805 Subunit I/VIIc interface [polypeptide binding]; other site 1085623010806 Subunit I/IV interface [polypeptide binding]; other site 1085623010807 Subunit I/II interface [polypeptide binding]; other site 1085623010808 Low-spin heme (heme a) binding site [chemical binding]; other site 1085623010809 Subunit I/VIIa interface [polypeptide binding]; other site 1085623010810 Subunit I/VIa interface [polypeptide binding]; other site 1085623010811 Dimer interface; other site 1085623010812 Putative water exit pathway; other site 1085623010813 Binuclear center (heme a3/CuB) [ion binding]; other site 1085623010814 K-pathway; other site 1085623010815 Subunit I/Vb interface [polypeptide binding]; other site 1085623010816 Putative proton exit pathway; other site 1085623010817 Subunit I/VIb interface; other site 1085623010818 Subunit I/VIc interface [polypeptide binding]; other site 1085623010819 Electron transfer pathway; other site 1085623010820 Subunit I/VIIIb interface [polypeptide binding]; other site 1085623010821 Subunit I/VIIb interface [polypeptide binding]; other site 1085623010822 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 1085623010823 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1085623010824 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1085623010825 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1085623010826 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1085623010827 LexA repressor; Validated; Region: PRK00215 1085623010828 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1085623010829 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 1085623010830 Catalytic site [active] 1085623010831 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 1085623010832 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 1085623010833 catalytic triad [active] 1085623010834 putative active site [active] 1085623010835 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1085623010836 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1085623010837 putative acyl-acceptor binding pocket; other site 1085623010838 threonine dehydratase; Reviewed; Region: PRK09224 1085623010839 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 1085623010840 tetramer interface [polypeptide binding]; other site 1085623010841 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1085623010842 catalytic residue [active] 1085623010843 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1085623010844 putative Ile/Val binding site [chemical binding]; other site 1085623010845 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1085623010846 putative Ile/Val binding site [chemical binding]; other site 1085623010847 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1085623010848 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1085623010849 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1085623010850 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 1085623010851 Walker A motif; other site 1085623010852 ATP binding site [chemical binding]; other site 1085623010853 Walker B motif; other site 1085623010854 arginine finger; other site 1085623010855 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1085623010856 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1085623010857 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 1085623010858 non-specific DNA binding site [nucleotide binding]; other site 1085623010859 salt bridge; other site 1085623010860 sequence-specific DNA binding site [nucleotide binding]; other site 1085623010861 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1085623010862 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 1085623010863 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 1085623010864 dimerization interface [polypeptide binding]; other site 1085623010865 ketol-acid reductoisomerase; Validated; Region: PRK05225 1085623010866 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1085623010867 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1085623010868 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1085623010869 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1085623010870 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 1085623010871 putative substrate translocation pore; other site 1085623010872 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1085623010873 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1085623010874 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 1085623010875 active site clefts [active] 1085623010876 zinc binding site [ion binding]; other site 1085623010877 dimer interface [polypeptide binding]; other site 1085623010878 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1085623010879 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1085623010880 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1085623010881 putative catalytic cysteine [active] 1085623010882 gamma-glutamyl kinase; Provisional; Region: PRK05429 1085623010883 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 1085623010884 nucleotide binding site [chemical binding]; other site 1085623010885 homotetrameric interface [polypeptide binding]; other site 1085623010886 putative phosphate binding site [ion binding]; other site 1085623010887 putative allosteric binding site; other site 1085623010888 PUA domain; Region: PUA; pfam01472 1085623010889 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 1085623010890 Zn binding site [ion binding]; other site 1085623010891 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1085623010892 ABC1 family; Region: ABC1; pfam03109 1085623010893 serine/threonine protein kinase; Provisional; Region: PRK14879 1085623010894 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1085623010895 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1085623010896 EVE domain; Region: EVE; cl00728 1085623010897 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 1085623010898 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 1085623010899 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 1085623010900 PAS domain; Region: PAS_9; pfam13426 1085623010901 putative active site [active] 1085623010902 heme pocket [chemical binding]; other site 1085623010903 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1085623010904 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1085623010905 dimer interface [polypeptide binding]; other site 1085623010906 putative CheW interface [polypeptide binding]; other site 1085623010907 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1085623010908 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 1085623010909 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 1085623010910 active site 1085623010911 Predicted membrane protein [Function unknown]; Region: COG1238 1085623010912 Predicted methyltransferase [General function prediction only]; Region: COG4798 1085623010913 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 1085623010914 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 1085623010915 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 1085623010916 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1085623010917 putative active site [active] 1085623010918 putative metal binding site [ion binding]; other site 1085623010919 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1085623010920 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 1085623010921 CPxP motif; other site 1085623010922 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1085623010923 active site 1085623010924 ribonuclease PH; Reviewed; Region: rph; PRK00173 1085623010925 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1085623010926 hexamer interface [polypeptide binding]; other site 1085623010927 active site 1085623010928 hypothetical protein; Provisional; Region: PRK11820 1085623010929 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1085623010930 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1085623010931 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 1085623010932 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1085623010933 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 1085623010934 N-terminal plug; other site 1085623010935 ligand-binding site [chemical binding]; other site 1085623010936 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 1085623010937 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1085623010938 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 1085623010939 putative active site [active] 1085623010940 metal binding site [ion binding]; metal-binding site 1085623010941 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 1085623010942 active site 1085623010943 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 1085623010944 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1085623010945 Protein of unknown function, DUF479; Region: DUF479; cl01203 1085623010946 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 1085623010947 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 1085623010948 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1085623010949 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1085623010950 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1085623010951 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1085623010952 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1085623010953 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1085623010954 HlyD family secretion protein; Region: HlyD_3; pfam13437 1085623010955 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1085623010956 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1085623010957 Walker A/P-loop; other site 1085623010958 ATP binding site [chemical binding]; other site 1085623010959 Q-loop/lid; other site 1085623010960 ABC transporter signature motif; other site 1085623010961 Walker B; other site 1085623010962 D-loop; other site 1085623010963 H-loop/switch region; other site 1085623010964 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1085623010965 FtsX-like permease family; Region: FtsX; pfam02687 1085623010966 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1085623010967 FtsX-like permease family; Region: FtsX; pfam02687 1085623010968 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1085623010969 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1085623010970 active site 1085623010971 phosphorylation site [posttranslational modification] 1085623010972 intermolecular recognition site; other site 1085623010973 dimerization interface [polypeptide binding]; other site 1085623010974 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 1085623010975 Walker A motif; other site 1085623010976 ATP binding site [chemical binding]; other site 1085623010977 Walker B motif; other site 1085623010978 arginine finger; other site 1085623010979 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1085623010980 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1085623010981 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 1085623010982 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 1085623010983 ATP binding site [chemical binding]; other site 1085623010984 Mg2+ binding site [ion binding]; other site 1085623010985 G-X-G motif; other site 1085623010986 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 1085623010987 MPT binding site; other site 1085623010988 trimer interface [polypeptide binding]; other site 1085623010989 DTW domain; Region: DTW; cl01221 1085623010990 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1085623010991 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 1085623010992 amidase; Provisional; Region: PRK08137 1085623010993 Amidase; Region: Amidase; pfam01425 1085623010994 High potential iron-sulfur protein; Region: HIPIP; pfam01355 1085623010995 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 1085623010996 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 1085623010997 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 1085623010998 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1085623010999 active site 1085623011000 catalytic site [active] 1085623011001 substrate binding site [chemical binding]; other site 1085623011002 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 1085623011003 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1085623011004 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1085623011005 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1085623011006 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 1085623011007 TPR motif; other site 1085623011008 binding surface 1085623011009 TPR repeat; Region: TPR_11; pfam13414 1085623011010 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 1085623011011 binding surface 1085623011012 TPR motif; other site 1085623011013 TPR repeat; Region: TPR_11; pfam13414 1085623011014 Protein of unknown function (DUF342); Region: DUF342; pfam03961 1085623011015 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 1085623011016 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 1085623011017 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 1085623011018 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1085623011019 catalytic residues [active] 1085623011020 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1085623011021 Bacterial SH3 domain; Region: SH3_3; pfam08239 1085623011022 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1085623011023 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 1085623011024 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 1085623011025 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1085623011026 ApbE family; Region: ApbE; pfam02424 1085623011027 Pirin-related protein [General function prediction only]; Region: COG1741 1085623011028 Pirin; Region: Pirin; pfam02678 1085623011029 Tryptophan-rich protein (DUF2389); Region: DUF2389; pfam09493 1085623011030 Tic20-like protein; Region: Tic20; pfam09685 1085623011031 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1085623011032 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1085623011033 Coenzyme A binding pocket [chemical binding]; other site 1085623011034 putative acetyltransferase; Provisional; Region: PRK03624 1085623011035 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1085623011036 Coenzyme A binding pocket [chemical binding]; other site 1085623011037 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1085623011038 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1085623011039 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1085623011040 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 1085623011041 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 1085623011042 Helix-turn-helix domain; Region: HTH_17; pfam12728 1085623011043 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 1085623011044 active site 1085623011045 DNA binding site [nucleotide binding] 1085623011046 Int/Topo IB signature motif; other site 1085623011047 integron integrase; Region: integrase_gron; TIGR02249 1085623011048 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1085623011049 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1085623011050 gamma subunit interface [polypeptide binding]; other site 1085623011051 epsilon subunit interface [polypeptide binding]; other site 1085623011052 LBP interface [polypeptide binding]; other site 1085623011053 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1085623011054 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1085623011055 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 1085623011056 alpha subunit interaction interface [polypeptide binding]; other site 1085623011057 Walker A motif; other site 1085623011058 ATP binding site [chemical binding]; other site 1085623011059 Walker B motif; other site 1085623011060 inhibitor binding site; inhibition site 1085623011061 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1085623011062 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1085623011063 core domain interface [polypeptide binding]; other site 1085623011064 delta subunit interface [polypeptide binding]; other site 1085623011065 epsilon subunit interface [polypeptide binding]; other site 1085623011066 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1085623011067 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1085623011068 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 1085623011069 beta subunit interaction interface [polypeptide binding]; other site 1085623011070 Walker A motif; other site 1085623011071 ATP binding site [chemical binding]; other site 1085623011072 Walker B motif; other site 1085623011073 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1085623011074 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1085623011075 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1085623011076 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1085623011077 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1085623011078 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1085623011079 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1085623011080 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1085623011081 ATP synthase I chain; Region: ATP_synt_I; cl09170 1085623011082 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1085623011083 ParB-like nuclease domain; Region: ParB; smart00470 1085623011084 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1085623011085 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 1085623011086 P-loop; other site 1085623011087 Magnesium ion binding site [ion binding]; other site 1085623011088 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 1085623011089 Magnesium ion binding site [ion binding]; other site 1085623011090 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1085623011091 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 1085623011092 S-adenosylmethionine binding site [chemical binding]; other site 1085623011093 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1085623011094 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1085623011095 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1085623011096 DNA replication protein DnaC; Validated; Region: PRK07952 1085623011097 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 1085623011098 Walker A motif; other site 1085623011099 ATP binding site [chemical binding]; other site 1085623011100 Walker B motif; other site 1085623011101 arginine finger; other site 1085623011102 primosomal protein DnaI; Provisional; Region: PRK02854 1085623011103 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1085623011104 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1085623011105 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1085623011106 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1085623011107 G1 box; other site 1085623011108 GTP/Mg2+ binding site [chemical binding]; other site 1085623011109 Switch I region; other site 1085623011110 G2 box; other site 1085623011111 Switch II region; other site 1085623011112 G3 box; other site 1085623011113 G4 box; other site 1085623011114 G5 box; other site 1085623011115 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1085623011116 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1085623011117 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1085623011118 membrane protein insertase, YidC/Oxa1 family, N-terminal domain; Region: yidC_nterm; TIGR03593 1085623011119 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 1085623011120 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1085623011121 Ribonuclease P; Region: Ribonuclease_P; cl00457 1085623011122 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399